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Cell Cycle Regulation Cheat Sheet

Course: MCB 104, Spring 2010
School: Berkeley
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Cycle Cell Regulation Cheat Sheet: Ok, heres the warning. This might not be all you need to know about cell cycle control, but I feel like its a great place to start. It should provide you 90+% of what you need. Just make sure that you study your notes in addition to this cheat-sheet. I really feel that some of these concepts need pictures to accompany them, but I will try to explain things as best as possible...

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Cycle Cell Regulation Cheat Sheet: Ok, heres the warning. This might not be all you need to know about cell cycle control, but I feel like its a great place to start. It should provide you 90+% of what you need. Just make sure that you study your notes in addition to this cheat-sheet. I really feel that some of these concepts need pictures to accompany them, but I will try to explain things as best as possible using words. Please refer to your notes, or find somebody who attends my sections theyve got all the pictures for these words: Cells start in the Gap1 (G1) phase where they grow and finally decide to start the process of division. They enter Synthesis (S) phase, where the cell replicates its genome. The cell then enters the Gap2 (G2) phase where it makes sure that the replication has occurred correctly and it gets ready to undergo cell division. Finally, these cells enter mitosis (M) phase. Each of these steps contains many checkpoints, and the procession of cells through these phases is highly complex and intricately coordinated. You only need to concern yourself with how a cell enters M phase (a late G2 event), and how the cell progresses through M phase. This is described in greater detail below: Gap2: Entry into Mitosis: During G2, Cyclin B is constantly being synthesized, and its levels are slowly rising throughout the cell. When they encounter Cyclin-Dependent Kinase 1 (Cdk1), it will bind to it and form a complex that is sometimes referred to as Mitosis Promoting Factor (MPF). However, it is still too early to enter M phase, so this Cdk1-Cyclin B complex is phosphorylated by two different kinases: CAK (activating phosphate), and Wee1 (master inhibitor phosphate). In this confirmation, it is turned off, but it poised. This poised confirmation builds up over the course of G2. Eventually (through a mechanism not discussed) the phosphatase Cdc25 cleaves off the inhibitory phosphate, leading to the activation of the Cdk1-Cyclin B complex. This complex can then stimulate activity of Cdc25 (leading of more conversion of poised MPF to active MPF), and inhibits the activity of Wee1 (which prevents active MPF being deactivated). Once the Cdk1-Cyclin B complex is switched on, M phase has begun. Prophase: This phase is primarily marked by a condensation of the chromosomes. However, the Cdk1Cyclin B complex is also beginning to find its targets and phosphorylate them. One of these targets is Lamina, the intermediate filament that gives the nucleus its shape. Phosphorylation of Lamina helps lead to a breakdown of the nuclear envelope. Prometaphase: Once the nuclear envelope has broken down, the Mitotic spindle can start forming. To aid in the search and capture of kinetochores, the rate of catastrophe for Microtubules (MTs) is increased. This is due to a disruption in the balance of MT stabilizers and destabilizers (kinesin-13 is a destabilizer, and XMAP215 is a stabilizer that is deactivated during M phase). Once a MT binds a to kinetochore, the + end of that MT is stabilized. The spindle contains three different types of MTs: Kinetochore MT (those bound to the kinetochore), Polar MT (those that overlap with MTs from the other pole), and Astral MT (all the rest, that stick out in crazy directions). Remember that the spindle can form in the absence of centrosomes because of the presence of Ran-GEF on the chromosomes. This enzyme creates a gradient of Ran-GTP around the chromosomes, which allows for nuclear transport to occur even in the absence of a nucleus and a nuclear pore (so NLS cargos get dropped off near chromosomes). Some of these cargos are MT nucleating factors that will allow for new MTs to form near the chromosomes. Kinesins can then move the MT, so that the + ends are in the middle, and the ends are on the outside. Dynein motors then bundle up the ends into a pole. Spindle Assembly Checkpoint: Mad 1 binds to kinetochores, but is displaced when a MT finally finds and binds to that kinetochore. While Mad1 is bound, it can bind to Mad2, change it (into Mad2* a notation that I have made up for ease of writing). Mad2* can then diffuse throughout the cytoplasm. It recruits Cdc20, and sequesters it, preventing Cdc20 from being incorporated into the Anaphase Promoting Complex (APC/C), meaning that anaphase is delayed until each and every kinetochore is bound by MTs and no Mad1 is bound to kintochores. Metaphase: The point at which all the chromosomes are lined up on the metaphase plate. Anaphase A+B: Anaphase cannot start until the APC/C is activated. APC/C is activated by the Cdk1-Cyclin B complex, but it requires Cdc20 as well. Cdc20 is only released after the Spindle Assembly Checkpoint is passed. Once this occurs, then the APC/C is active. Unlike the other regulatory complexes, APC/C is an E3 ubiquitin ligase, meaning that it poly-ubiquitinates proteins leading to their degredation by the Proteasome. The APC/C targets Securin, degrading it and causing it to release Separase, a protease that cleaves Kleisin, the clasp that is part of the Cohesin ring complex. Cutting Kleisin causes Cohesin to fall off the chromosomes, allowing the sister chromatids to be pulled to their appropriate poles. This is Anaphase A. Anaphase B is where the poles push away from each other. Telophase: In order for the nuclear envelope to enclose each genome, the Cdk1-Cyclin B complex must be shut off. This is accomplished by switching out the Cdc20 subunit of the APC/C for Cdh1, which causes the APC/C to recognize different targets, including Cyclin B. This degradation of cyclin B allows for the reversion of the changes the cell went through in early M phase. This allows the laminar sheet to reform, allowing for the reassembly of the nuclear envelope. Once this occurs, the chromosomes can de-condense. Cytokinesis: Once the nuclear envelopes have reassembled, the two cells pinch off from each other by the use of a contractile ring made of Actin and Myosins.
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Berkeley - MCB - 104
Review Sheet, Exam 1 By: Brett Schofield WARNING: This is not all of the information that you will need to know, but it is a good guide for your studying. Some of the details have been left out for the sake of brevity. Nuclear Transport: Small proteins (l
Berkeley - MCB - 104
ProblemSet1 1. WhattwoimportantchangestakeplaceattheleveloftheDNAduringmeiosis? 2. Whatiscrisscrossinheritanceandwhatisitoftenassociatedwith? 3. Aboyisbornwithprotanopia(Xlinked),althoughbothofhisparentshavenormal colorperception.Onhismaternalside,hehast
Berkeley - MCB - 104
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Berkeley - MCB - 104
ProblemSet2 MCB104Section105/106 1. Whatisthekeydistinctionbetweenacellstrainandacellline?Whatarethe advantagesanddisadvantagesofusingeachforexperiments? 2. Howcanyouexperimentallychangethesubcellularlocalizationofaprotein? 3. Considertheaccompanyingpe
Berkeley - MCB - 104
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Berkeley - MCB - 104
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Berkeley - MCB - 104
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Berkeley - MCB - 104
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Berkeley - MCB - 104
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Berkeley - MCB - 104
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Berkeley - MCB - 104
ProblemSet6Answers PracticeProblems 1.Predictifeachmutationbelowwillmostlikelyleadtoalossoffunction,dominant negative,orgainoffunctionallele. FrameshiftmutationinRas Frameshiftmutationsgenerallyleadtoearlytruncationoftheproteinand completeLOSSOFFUNCTION
Berkeley - MCB - 104
ProblemSet6MCB104Section105/106 ThingstoknowforQuizII 1. C.elegansgenetics(hermaphroditesvs.males;crossprogenyvs.selfprogeny) 2. Cellsandsignalingpathwaysunderlyingvulvadevelopment 3. Characterizingamutation(seebelow) a. Dominantvs.recessive b. Typeofall
Berkeley - MCB - 104
ProblemSet7 1.Bicoidisoneofseveralmaternaleffectgenesrequiredforthesuccessfuldevelopmentof Drosophilaembryos.Youhaveisolatedarecessivemutationinthebicoidgene(bc).For eachcrossbelow,listthegenotypesofallF1progenythatyoupredictwillsurviveto adulthood. bc/+
Berkeley - MCB - 104
ProblemSet7 1.Bicoidisoneofseveralmaternaleffectgenesrequiredforthesuccessfuldevelopmentof Drosophilaembryos.Youhaveisolatedarecessivemutationinthebicoidgene(bc).For eachcrossbelow,listthegenotypesofallF1progenythatyoupredictwillsurviveto adulthood. bc/+
Berkeley - MCB - 104
MCB104Quiz2Section105 Name:_ 1A(2points).YouarestudyingahermaphroditeC.eleganswormwithagainoffunction mutationinlet60(Ras).Whatwouldbethephenotypeofthiswormifyouusedalaserto destroytheanchorcellearlyindevelopment?Why? Multivulva.Inalet60gainoffunctionw
Berkeley - MCB - 104
MCB104Quiz2Section106Name:_ 1A(2points).WhatisthephenotypeofawildtypehermaphroditeC.eleganswormin whichyouhaveusedalasertodestroytheanchorcellearlyindevelopment?Why? Thewormwillbevulvaless.TheEGFsignalfromtheACisrequiredtodriveP6.pinto thevulvalfate.In
Berkeley - MCB - 104
Week 1 Questions1. A three-point testcross was made in corn. The results and a recombination analysis are shown in the display below, which is typical of three point testcrosses (p = purple leaves, + = green; v = virus-resistant seedlings, + = sensitive;
Berkeley - MCB - 104
Week 1 Questions1. A three-point testcross was made in corn. The results and a recombination analysis are shown in the display below, which is typical of three point testcrosses (p = purple leaves, + = green; v = virus-resistant seedlings, + = sensitive;
Berkeley - MCB - 104
1/31/2010QUIZ #11. 2. 3. 4. 5. 6. 7. 8. 9. 10. 11.Please take out a piece of paper and provide the following information: Name (UCB legal name and any preferred nicknames) Student ID number Email address Enrolled in lecture (yes / no) Enrolled in this
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MCB 104: Genetics, Genomics & Cell Biology Spring 2010 Discussion Section Syllabus Lecture: Mondays, Wednesdays, Fridays 10:00 11:00am (155 Dwinelle) Professors Garriga, Dernberg, and Rokshar Discussion: Please attend the section in which you are enrolled
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WEEK 2: AGENDAQuiz: Recombinant classes Week 1 MaterialReview tri-hybrid cross Clarify wild-type vs dominant Review select assigned problemsWeek 2Gene mapping practice problem Review pedigree notation Review select assigned problems
Berkeley - MCB - 104
1/31/2010ICE-BREAKERGet into pairs. Ask your partner the following questions you will be reporting their answers back to the class.MCB 104: Genetics, Genomics & Cell Biology DiscussionWEEK 1: MENDELIAN GENETICSName One advantage of using pea plant On
Berkeley - MCB - 104
Name: SID: ForeachmutationinC.elegans,pleaselistwhethertheexpectedphenotypewouldbe vulvaless(vul)ormultivulval(muv).willmeanlossoffunction.+willmeanconstitutively active. lin3(EGF):vul lin23(EGFR):vul let60(Ras):vul let60+(Ras+):muv lin1+(transcriptionfac
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Name: Organelle Genetics/Maternal Affect 1. Please fill out the empty cells in the following table of crosses using an organism whose genetics resemble that of a human. The P generation in the first 4 rows can be considered true breeding or homozygous for
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Name: SID: GENETICS REVIEW 1) Jazz Hands is an extremely rare autosomal recessive disorder that makes one an incredible dancer. Frank and Jamie know they have a family history, and want to capitalize on this fact by creating a superstar child. Franks brot
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1. 10pts.MendelJr.isaBerkeleygeneticist.Hehasdiscoveredtwonewtraitsinmice, eachcontrolledbyasinglelocus.Baggyisanautosomalrecessivetraitlabeledb. Froggyisasexlinkedrecessivetraitlabeledf.Atruebreedingbaggyfemalewasbred withatruebreedingfroggymale.Alloffsp
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Name: SID: 1. 10pts.MendelJr.isaBerkeleygeneticist.Hehasdiscoveredtwoextremely rarenewtraitsinmice,eachcontrolledbyasinglelocus.Baggyisan autosomaldominanttraitlabeledB.Froggyisasexlinkedrecessivetrait labeledf.Ahomozygousbaggy(BB)femalewasbredwithatruebr
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Name: SID: Quiz2 25totalpointspossible 1.(6pts)Tastebudlessisasimpleautosomalrecessivedisease,withthedebilitatingoutcome ofbeingunabletoenjoypie.Thepopulationfrequency(probabilityofanyonepersoncarrying1 allele)fortastebudlessis1/1000. Iftwopeoplewithnofam
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MCB 104: Week 2 Practice Problems ANSWERS Section 103/112 1. You are trying to look two membranes separated by less than 100 nm under a light microscope. This is causing you such difficulty. Why is this the case? What other technique could you use? The re
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MCB 104: Week 2 Practice Problems Section 103/112 1. You are trying to look two membranes separated by less than 100 nm under a light microscope. This is causing you such difficulty. Why is this the case? What other technique could you use?2. You are int
Berkeley - MCB - 104
Section 103/112 Genetics Review WORKSHEET Mendels First Law: Themembersofagenepairseparateequallyintotheeggsandsperm Mendels Second Law: Differentgenepairsassortindependentlyingameteformation Product Rule: Theprobabilityofindependenteventsbothoccurringtog
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Section 103/112 Genetics Review WORKSHEET Mendels First Law:Mendels Second Law:Product Rule:Sum Rule:Tay-Sachs is a severe autosomal recessive disease caused by the malfunction of the enzyme hexosaminidase A. The defect leads to a buildup of fatty dep
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1. (10!pts)!Gigglegopia!is!a!disorder!that!causes!fits!of!uncontrollable!laughter.!It!is!known!to!be! controlled!by!a!single!locus.!The!pedigree!below!shows!the!inheritance!of!gigglegopia!in!a! family.!Assume!the!presence!of!the!mutation!that!causes!this!
Berkeley - MCB - 104
1. (10!pts)!Gigglegopia!is!a!disorder!that!causes!fits!of!uncontrollable!laughter.!It!is!known!to!be! controlled!by!a!single!locus.!The!pedigree!below!shows!the!inheritance!of!gigglegopia!in!a! family.!Assume!the!presence!of!the!mutation!that!causes!this!
Berkeley - MCB - 104
Week2Pedigrees AUTOSOMALDOMINANTINHERITANCE Ifthisweretobearecessiveinheritancepattern,themutationwouldhavehadtohavebeenpresentin LynnandTimsparents,Lynnshusband,andjohnswife.Unlessthisisaverycommonmutation,a recessiveinheritancepatterisunlikelyinissitua
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2/1/2010 MCB 104; Handout #1 1. Barbara McClintock demonstrated that genes are distributed linearly on chromosomes by demonstrating that recombination between traits correlated with recombination between knobsphysical features of maize chromosomes. Why di
Berkeley - MCB - 104
2/1/2010 MCB 104; Handout #1 1. Barbara McClintock demonstrated that genes are distributed linearly on chromosomes by demonstrating that recombination between traits correlated with recombination between knobsphysical features of maize chromosomes. Why di
Berkeley - MCB - 104
2/8/2010 MCB 104; Handout #2 1. Anterograde transport: theres not a ton of memorization in this class, but you should know the order in which a secreted protein passes through the ER, and various golgi cisternae in anterograde transport. Ribosome/Cytoplas
Berkeley - MCB - 104
2/8/2010 MCB 104; Handout #2 1. Anterograde transport: theres not a ton of memorization in this class, but you should know the order in which a secreted protein passes through the ER, and various golgi cisternae in anterograde transport. 1A. In which step
Berkeley - MCB - 104
2/15/2010 MCB 104; Handout #3 1. The Ras pathway is the canonical Receptor Tyrosine Kinase (RTK) signaling pathway. Put the following steps of Ras signaling in order (note: well very likely be talking about the Ras pathway again in the genetics section of
Berkeley - MCB - 104
2/15/2010 MCB 104; Handout #3 1. The Ras pathway is the canonical Receptor Tyrosine Kinase (RTK) signaling pathway. Put the following steps of Ras signaling in order (note: well very likely be talking about the Ras pathway again in the genetics section of
Berkeley - MCB - 104
2/22/2010 MCB 104; Handout #4 1. What are kinetochores, and where are they found? Other key terms to know: centromere, cohesin, Dam1. Stanfurd students often confuse centromeres with centrosomes. Dont make the same mistake. Kinetochores are protein comple
Berkeley - MCB - 104
2/22/2010 MCB 104; Handout #4 1. What are kinetochores, and where are they found? Other key terms to know: centromere, cohesin, Dam1. Stanfurd students often confuse centromeres with centrosomes. Dont make the same mistake.2. Which of the following pairs
Berkeley - MCB - 104
2/26/2010 MCB 104; Handout #5 1. Professor Dernburgs slides list six hallmarks of cancer cells. Know them. Sustained angiogenesis, self sufficiency in growth signals, insensitivity to antigrowth signals, tissue invasion and metastasis, limitless replicati
Berkeley - MCB - 104
2/26/2010 MCB 104; Handout #5 1. Professor Dernburgs slides list six hallmarks of cancer cells. Know them. Think about experiments you could do to see if a cell had acquired each of those hallmark properties. For example: A. You are culturing mammalian ce
Berkeley - MCB - 104
3/8/2010 MCB 104; Handout #6Answer Key1. You have a mixture of Neruospora, some of which are auxotrophs and some of which are prototrophs. How can you quickly isolate the prototrophs? How could you identify the auxotrophs? Grow them on minimal media. Pr
Berkeley - MCB - 104
3/8/2010 MCB 104; Handout #6 1. You have a mixture of Neruospora, some of which are auxotrophs and some of which are prototrophs. How can you quickly isolate the prototrophs? How could you identify the auxotrophs? 2. You are studying a haploid organism th
Berkeley - MCB - 104
3/15/2010 MCB 104; Handout #7 GUIDE TO EPISTASIS ANALYSIS: Intro: Often, genes function together in a biological pathway. Epistasis is used to determine the order of genes in that pathway. Epistasis requires making a double mutant for two genes with disti
Berkeley - MCB - 104
3/15/2010 MCB 104; Handout #7 Practice problems: 1. What will be the vulval phenotype of each of the following classes of C. elegans mutant? 1A. EGF- (null); EGFR* (constitutive): Multivulva (1o & 2o fates) 1B. EGFR- (null) Ras* (constitutive): Multivulva
Berkeley - MCB - 104
3/29/2010 MCB 104; Handout #8 1A. In Drosophila, will mutations that prevent the functioning of the dosage compensation machinery be lethal in males, females, or both? Explain. Males. Drosophila dosage compensate by increasing the expression of X-linked g
Berkeley - MCB - 104
3/29/2010 MCB 104; Handout #8 1A. In Drosophila, will mutations that prevent the functioning of the dosage compensation machinery be lethal in males, females, or both? Explain. 1B. In C. elegans, will mutations that prevent the functioning of the dosage c
Berkeley - MCB - 104
MCB 104 3/17/2010Quiz #2 25 points possibleName: SID:Note: I have included explanations to help you study. Explanations were not required to receive full credit on this quiz. All that was required was the pathway, compound, phenotype, or ratio, as requ
Berkeley - MCB - 104
MCB 104 Sections 109 & 110 Section 109 Wed 11-12pm Section 110 Wed 12-1pm156 Dwinelle 215 DwinelleGSI: Scott Siera Email: scott.siera@gmail.com Office Hours: Tue, 10-11am at Cafe Strada (@ corner of Bancroft & College) Grading: Three (3) quizzes, 25 pts
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Discussion 2: Pheromones and Olfaction MCB 167 Spring 2010. For Discussion Sections Feb 5. Overview Pheromones are odorant molecules that mediate species-specific chemical communication, including finding and recognizing a mate, recognizing kin vs. non-ki
Berkeley - MCB - 167
Vol 448 | 30 August 2007 | doi:10.1038/nature06089A RTICLESA functional circuit underlying male sexual behaviour in the female mouse brainTali Kimchi1, Jennings Xu1 & Catherine Dulac1In mice, pheromone detection is mediated by the vomeronasal organ an
Berkeley - MCB - 167
!"#$%#"&'()*(+&,&-(."#"&' /+0(123(45-"'6()7178(9&-(!"#$%#"&'(4:$;"&'(9:<(1)8 !"#$"%#& =-"$>-&?@;"$($&,&-(."#"&'(@-&#:("'(A,B(C&-,B(?&'D:E#(@'B(>%?@'#8(=>:(@BB";"&'(&F(@(;>"-B($&,&-(&5#"'( 5-&."B:B(;>:(@<",";E(;&(B"#;"'6%"#>(6-:'(F-&?(-:B8(4%<#:G%:';(,&#(&
Berkeley - MCB - 167
Vol 461 | 8 October 2009 | doi:10.1038/nature08401L ETTERSGene therapy for redgreen colour blindness in adult primatesKatherine Mancuso1, William W. Hauswirth2, Qiuhong Li2, Thomas B. Connor3, James A. Kuchenbecker1, Matthew C. Mauck3, Jay Neitz1 & Mau
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MCB167 DiscussionassignmentforFriday,Feb19 DirectionSelectivityinMammalianRetina Reading: YoshidaK,WatanabeD,IshikaneH,TachibanaM,PastanI,NakanishiS.Akeyroleofstarburstamacrine cellsinoriginatingretinaldirectionalselectivityandoptokineticeyemovement.Neur
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Neuron, Vol. 30, 771780, June, 2001, Copyright 2001 by Cell PressA Key Role of Starburst Amacrine Cells in Originating Retinal Directional Selectivity and Optokinetic Eye MovementKazumichi Yoshida,1 Dai Watanabe,1 Hiroshi Ishikane,3 Masao Tachibana,3 Ir
Berkeley - MCB - 167
MCB!167! Discussion!assignment!for!Friday,!Feb!26! Axonal!Delay!Lines!for!ITD!Calculation!! Reading!:! Seidl!AH,!Rubel!EW,!Harris!DM.!Mechanisms!for!adjusting!interaural!time!differences!to!achieve! binaural!coincidence!detection.!Journal!of!Neuroscience
Berkeley - MCB - 167
70 The Journal of Neuroscience, January 6, 2010 30(1):70 80Behavioral/Systems/CognitiveMechanisms for Adjusting Interaural Time Differences to Achieve Binaural Coincidence DetectionArmin H. Seidl, Edwin W Rubel, and David M. HarrisVirginia Merrill Blo