MBLG 2071 MBLG Welcome! MBLG2X71 MBLG2X71 LECTURES. Lecture COURSE COORDINATOR

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1 MBLG 2071 MBLG 2971 Welcome! WebCT and your Prac Manual contain details from this introductory lecture COURSE COORDINATOR Vanessa Gysbers (rhymes with??) Room 377 (in corner of Student Labs) Room 303 (in the lab next door to ) Biochemistry & Microbiology Building Ph , vanessa@mmb.usyd.edu.au See me for: admin problems not solved on WebCT, lab manual help with lectures, labs, tutes MBLG2X71 Extends concepts of Molecular Biology introduced in MBLG1001. Provides a firm foundation for students to continue in molecular biosciences. Application of theory and techniques to biological and medical questions. MBLG2X71 There are 23 lectures (2 per week) Wednesdays and Fridays There are 2 repeats of each lecture 8am (ouch!), repeated at 10 am The lecture outline and lecture notes will be on WebCT. There are also 6 five hour lab sessions (1 per ~fortnight). Lecturers Prof. Tony Weiss Room 613, aweiss@mail.usyd.edu.au Prof. Iain Campbell Room 712, icamp@mmb.usyd.edu.au Lecture 1st 1 st lecture repeated 2nd 2 nd lecture repeated LECTURES Day Time Location Wednesday 8 am Chemistry Lecture Theatre 1 Wednesday 10 am Chemistry Lecture Theatre 1 Friday 8 am Chemistry Lecture Theatre 1 Friday 10 am Chemistry Lecture Theatre 1 Dr Hannah Nicholas Room 716, hannah@mmb.usyd.edu.au 1

2 TEXTBOOKS Molecular Biology of the Gene by Watson et al., 5th Edition. or Any recent edition of the identically titled texts: Biochemistry by either Garrett & Grisham, or Voet & Voet, or Stryer. or Essential Biochemistry by Pratt and Cornely, 1 st Edition Great for BCHM, but may not be detailed enough on the molly bolly. MBLG2X71 WEBSITES: WebCT Or alternatively updated regularly with lecture notes, assignments, study guides, past papers, lab results etc as the course progresses. Student Support Office Biochemistry Building Level 4 The source and destination of all paperwork! All messages and Special Consideration Forms MUST be left with the Student Support Office Practicals LABS START THIS WEEK!! yesterday!! You have been allocated a prac group based on your timetable. Prac group allocations are up on the green notice board at entry to level 3 teaching lab in the Biochemistry building (lab 380). PLEASE check your prac group BEFORE YOUR LAB STARTS. Prac Groups The prac group you have been allocated will have a name like this: 2TueA Starts in week 2: (weeks 2, 4, 6, 8, 10, 12) EVEN weeks On Tuesdays In Group A (random) Changing Prac Days Fill in Prac change request form if: the prac DAY (NOT group) you have been allocated is inconvenient your timetabled prac group is different to the one on the notice board you have not been allocated a prac group as yet ( unassigned on notice board). you are not on the list yet 2

3 Changing Prac Days Acceptable excuses for changing practical days are work commitments, timetable clash Unacceptable excuses The girls/boys look better in the other day My best friend is in another day Learn to work with new people!! It will be good for your character and career. Changing Prac Days ALL prac change requests must be in writing using the form available at Student Support Office (L4 of the Biochemistry Building) on WebCT Completed form submitted to the Student Support Office You will be notified of change by . Changing Prac Days School of Molecular and Microbial Biosciences MBLG2071/2971 Demonstration Change Request SID: Degree: Name: Current timetabled Session: Reason for change request: Please indicate your top 3 preferences by writing 1, 2, 3 in the boxes below: Tuesday 1, 1-6 Cycle 1 Tuesday 1-6 Cycle 2 Wednesday 1-6 Cycle 1 Wednesday 1-6 Cycle 2 Thursday 1-6 Cycle 1 Thursday 1-6 Cycle 2 Friday 1-6 Cycle 1 Friday 1-6 Cycle 2 You will be informed of your new allocation via and the class lists on the lab noticeboard will be updated to reflect allocation changes. Please note: although every effort will be made to accommodate your request, maximum student numbers for demonstrations apply and students will not be moved into a session that is already full Changing Prac Days DO NOT change prac groups or prac days without permission, even for one day. You may be marked as absent! If you must miss a single prac: See Ms Gysbers ASAP or before. You may be able to attend another session. -You MUST have written permission You must attend 90%of all prac sessions to pass, even with a medical certificate. Did you miss a prac yesterday? Were you timetabled for 1 Tue? You should have been at a prac yesterday! If you missed it Come NEXT TUESDAY, just for this prac. See Ms Gysbers during before the prac. Then attend the next prac in week 3 as usual. By Fri next week, you should all have done UV Spectrophotometry. What to bring to pracs Your brain! Betty Crocker doesn t live here. The Laboratory Resource Manual. This is a soothing cream colour. It is available for $15 from the Co-op bookshop (not the Copy Center). Be sure to buy the MBLG2071 & MBLG 2971 manual: not the BCHM or 3 rd year manuals (unless you need them as well!) 3

4 What to bring to pracs A hard covered bound notebook. ALL original data (including gel pictures, calculations, etc) must be recorded in this book. Section 2 in the manual on record keeping will provide some hints. You may use last year s book. A marker pen for writing on glassware; use the type in which the ink is insoluble in water (e.g.. Pentel). A pair of safety glasses. A calculator, preferably not your mobile phone. A laboratory coat. Assessment The lecture component of the course is worth ~50% of the final assessment and the material is assessed in one 2.5 h exam held in the exam period. 70% of the marks in this exam are awarded to questions relating to the lecture material. Assessment The practical component contributes ~50% to the final mark and is assessed both with in-semester tasks (next) and in the end-of-semester 2.5 h exam. A pass in both the theory and practical sections is essential. DNA Fingerprinting II: Report Lab Notebooks and excel templates TOTAL Assessment PRACTICAL ASSESSMENT Gene Expression I: Results legend and interpretation Gene Expression II: Experimental design, Report and PowerPoint slides DNA Fingerprinting I: Discussion Questions End of Semester Exam (Theory, Theory of Prac) MARKS Late Submission For in Semester work: Late work attracts a penalty of 10% / day. 10 days late mark of zero However, all work must be handed in for you to complete the course. Hand in to YOUR USUAL demonstrator, or to Student Support Office. For in Semester work: In cases of illness or misadventure, where an extension is requested you MUST apply for special consideration with the Science Faculty. The process and forms can be found at the following website: g/forms/special_cons.shtml 4

5 For short term illness or misadventure Ongoing illness or other difficulties see disability office Let me know We may be able to help!!! What you should do if you miss an exam because of sickness or misadventure? If you are unable to sit an end-of-semester exam, you must apply for Special Consideration including submission of appropriate supporting documentation, within seven (7) days from the date of the exam. If a student does not sit an examination and is not granted Special Consideration, a grade of AF (Absent Fail) will result for that examination. All messages and Special Consideration Forms MUST be left with the Student Support Office If granted, you may be permitted to sit for a deferred examination. Deferred exam will be held on Friday, 6 th July This will be a different paper! This exam will cover the same material as the original exam, but will contain new questions and may be in a different format. There will be no further testing. Optional Tutorials SIDs of those students eligible to sit this deferred exam will be posted on the web. IT IS YOUR RESPONSIBILITY TO FIND OUT IF YOU ARE ELIGIBLE TO SIT THE DEFERRED EXAM. These will begin in about week 3 or 4. They will be announced in lectures. Thursday 10am & 11am Friday 11am & 12 pm At Chemical Engineering Lecture Theatre 1 Tutorial questions, similar in style to exam will be put on the web try them before tute! 5

6 MBLG2971: Advanced Did you get a DISTINCTION or higher in MBLG1001? AND Would you like more depth in the prac course? Would you like to tell people at parties that you are doing advanced Molecular Biology? THEN You are invited to apply for MBLG2971. See Web for details of differences in courses. Apply for MBLG2971 Advanced Name, SID, and request on paper to Student Support Office ASAP!! You will also need Special Permission Form (Faculty Office, Carslaw) to change enrolment You will be notified by The scope of MBLG1001 Why is this course been a pre-requisite for so many different disciplines within the life sciences? Whether your interest lies in sports science, nutrition, plants, animals, bacteria or biochemistry. the genes RULE!! The scope of MBLG2X71 Whatever system or organism you are interested in; its regulation is going to be determined largely by the functioning of various proteins. The response of cells when we eat, starve or exercise will, in part, be determined by our genetic make-up. The scope of MBLG2X71 How does the information in our DNA turn into proteins? ( MBLG1001) How can cells switch off and on genes; upor down-regulate production? Question Every cell has the same DNA. What makes different cells different? 6

7 Question Every cell has the same DNA. What makes different cells different? Different types of cells regulate the types and amount of proteins they make from the same DNA. Question HOW do different types of cells regulate the types and amount of different protein they make from the same DNA? Question HOW do different types of cells regulate the types and amount of different protein they make from the same DNA? Do this course to find out! (and learn how we try to find out what we don t yet know) The Silicon/Carbon IT Example Hard drive- a stable storage for all information and application files genome: DNA proteins We have ways of copying part of the information onto portable storage discs When you run an application, like Word or a Web program, your computer makes a short lived copy of part of the information on the hard drive. This is known as RAM. RNA plasmid vectors Carbon based IT Only very rarely do you copy your whole hard-drive; this is a fairly serious activity done only for back-up Likewise only once in the life of the cell do we copy the genome. You can make lots of copies on the RAM. Carbon based IT The DNA in almost every cell in your body contains the same information. Usually only one copy of each gene. Yet each cell will need a few proteins in large numbers many at low copy number. many sequences are not represented at all! 7

8 Carbon based IT How is each cell able to find and copy the correct sequences in the right quantity without copying the unnecessary ones? How does the cell achieve the massive amplification of some sequences while others are very low? How does the cell change the amount or type of sequences in response to stimuli or during development? Carbon based IT These are the big questions Molecular Biology is trying to answer. This semester we hope to introduce you to of some of the processes involved. Whether you are interested in sports, exercise, nutrition, plants, animals, viruses, bacteria or biochemistry you will need to understand the GENES!! Carbon based IT Not only does Molecular Biology offer an understanding of cell regulation at the genetic level BUT.. It also provides techniques to manipulate and transfer this information to other cells, usually bacteria. So far in MBLG1001 we covered: The properties of the BIG information biopolymers; DNA, RNA and protein. The processes involved in the flow of genetic information from DNA to RNA to protein, mainly in prokaryotes. As well as an introduction to molecular genetics The basics behind many of the modern techniques of molecular biology; restriction digestion, gel electrophoresis, DNA isolation, enzyme assays 8

9 Regulation of the genome How are only certain parts used at certain times? Organisation of the genome: How is replication controlled? Manipulation of the genome: How do we study genes and their function? Problems with the genome: How is damage done, detected and repaired? Genome Organisation: DNA and the chromosome Eukaryotic replication The cell cycle and the control of cell proliferation Genome Organisation: Cross-over over at the molecular level Mutation Repair Model organisms Transcriptional Control: Examples from prokaryotes and eukaryotes During development How metabolites and hormones can switch on transcription of genes generating diversity from single genes eg antibodies Translational Control: Directing translation to specific cellular locations mrna stability Proteins that recognise and bind to RNA Generating diversity from single genes 9

10 The techniques and their use: insulin gen PCR.. Identifying DNA sequences Hum Introducing foreign DNA into other cells gene therapy Identifying proteins that bind to nucleic acids The techniques and their use: Whole animal studies transgenic animals knock-out out animals Site-directed mutagenesis In the lab: Students looking for MBLG Investigate transcriptional control in a model system Design your own experiments Gain experience in techniques such as PCR and plasmid isolation Good Luck Advice Vast majority of students DO pass! Except those who do hardly any work!! DO keep up Don t let work pile up Don t let things you don t understand escape from you DO make summaries, diagrams etc DO hand everything in DO use the information in your lab manual DO see me if you are having difficulties DO enjoy the exciting world of molecular biology 10