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BIOL10301(F16)_Syllabus

InformationSheetandSyllabus
BIOL103Fall2016
Mon/Wed11:3512:50,OML202

Instructorincharge:VivianIrish,vivian.irish@yale.edu
Coursecoordinator:SamanthaLin,samantha.lin@yale.edu

TeachingScholars:XinyueChen(xinyue.chen@yale.edu),JunsiongLow(junsiong.low@yale.edu),YisiLu(yisi.lu@yale.edu),EmilyWingrove
(emily.wingrove@yale.edu),BiyanZhang(biyan.zhang@yale.edu)andTBD

PeerTutors:TBD

CoursePhilosophy:Toinspirealoveofbiology,andgeneticsanddevelopmentinparticular.Wewilllearnaboutbiologythroughlectures,discussionsections,
homework,reading,andthinkingthroughandsynthesizingthematerial.Wewantyoutolearntothinklikeascientist,because,whoknows,youmaybemakingthe
nextbigdiscovery!
ThepurposeofthecourseistogeteveryonetoabasiclevelofunderstandingofdevelopmentandgeneticsthepurposeISNOTtoweedoutthelessprepared
students.
Wewillexploredevelopmentalbiologyinavarietyoforganisms,andusedevelopmentalbiologyasanentreeintounderstandinghowgenesactinavarietyof
processes.

Coursewebsites:
Classesv2
PDFfilesoflectureslidespleasebringwithyoutolecture.
Homeworkassignmentswillbeposted.
UseClassesv2toelectronicallyturnincompletedassignments.Thesiterecordsifanassignmentisturnedinbythedeadline.
Answerkeysandgradedistributionswillbeposted
Courseannouncements

Piazza.com
UsetopostquestionsaboutnonGoogleablematerialfromclass
Classmate,professors,teachingscholarscanallpostanswers
Studentpostingsareanonymous
Themoreyouuseit,themoreusefulitis.
Notaplacetotrawlforanswerstohomework,ortotrollaboutthecourseortheinstructors.

Textbookandotherassignedreadings:
Textbook:Life,thescienceofbiology9thor10thed,bySadavaetal.Specificpagesareassignedforeachlecture,pleasetryandreadpriortoclass.Youcan
buytheeBookorprintbookfromtheYalebookstore.Youwillnotbeheldresponsibleformaterialinthereadingthatwasnotpresentedinlecturesorinthestudy
guides.Thetextdoesreinforceconceptspresentedinthelecturesbyexplainingtheminadifferentwayandusingdifferentexamples.
Primaryresearchpapersandotherreadings:WillbepostedonClassesv2intheResourcesfolder.

Lectures:PDFsofLectureslideswillbepostedonClassesv2intheResourcesfolderapproximately2daysinadvanceofeachlecture.Itisyourresponsibilityto
eitherdownloadhardcopiesinordertotakenotesorviewonlineduringclass.StudyguidestoaccompanythelectureswillalsobepostedonClassesv2.

Discussionsections:HeldWed/Th/Friatvarioustimes.Pleasesignupforonesectionviaonlineregistration,startingonAugust31(firstdayofclasses).Ifyou
planontakingBIOL104,pleasesignupforthesamesectionin103and104.Thediscussionsectionsare50minuteslongandwillcoverprimaryliterature
readings,aswellasprovideyouwithavenuefordiscussionandquestionsonclassmaterial.Youshouldattendthesamesectioneveryweek.Sectionsbeginthe
weekofSeptember5.

Enrichmentmeetings:meetMondayevenings.Theseenrichmentsessionsareforstudentswhofeelunderpreparedforthecourse.Ifinterested,signupviathis
link.

Gradingpolicy:
Five15minuteinclassquizzes,dropthelowestscore:35%
Fivehomeworkassignments,dropthelowestscore:25%
Discussionsectionparticipation:10%
Finalexam,inclass,October12:30%

Thegradedistributionwillbebasedonthefollowing:20%A,20%A,20%B+,20%B,last20%lowergrades.Thiswillbeadjustedbasedonhowthegroupasa
wholeperforms.

HomeworkassignmentswillbesubmittedviaClassesV.2.onaweeklybasisat11:00am,(priortothestartoflecture).Youareresponsibleformakingsurethat
yourassignmentisuploadedbeforeleavingtheClassesV.2.website.Ifyouareexperiencingtechnicaldifficulties,emailyourassignmentimmediately(before
lecturestarts)toyourteachingscholar.Homeworkwillbedowngradedonefulllettergradeforeachdaylate.Youcanworkonhomeworkassignments
collaboratively(e.g.peerdiscussionsandedits)buteachprojectisoriginalandyoumustwriteityourself.Youmustdiscloseanycollaboration:whoandwhatkind
ofcollaboration.

Wedonotgivemakeupquizzes.Ifyoumissaquiz,thefirstmisswillcountasyourdroppedquiz.Ifyoumissfurtherquizzes,youwillneedaDeansexcusefor
anysubsequentmissedquizzes,oryouwillreceiveazeroforthatquiz.Ifyoumissmorethan3quizzes,youwillreceiveanincompleteforthecourse.Quizzes
occuratthebeginningofclass,sopleasebeprompt!

Ifyoumissthefinal,youwillneedaDeansexcusetotakeawrittenmakeupexam.
BIOL103SyllabusFall2016
GeneticsandDevelopment
VivianIrish

WedAug31.Lecture1:IntroductiontoGeneticsandDevelopment.Wewilldiscussthescientificmethodtherelationshipbetweengenes,developmentand
evolutionintroducemodelorganismscarryoutaninclassassessmentandcovercoursestructure,includinghomeworkassignments,discussionsections,
andenrichment.

Reading:Life,Chapter1.
Watch:http://www.dnalc.org/view/16834Animation40Livingthingssharecommongenes.html

Homework:StartHomework1

FriSept2.Lecture2:KeyConceptsinDevelopment.Wewilldiscusshowgenescontroldevelopmentthatdevelopmentalprocessesareconserveddifferential
geneexpression.Wewillreviewtheconceptsofgenes,chromosomes,DNA,mutations,mutantscreens.

Reading:LifeChapter19,pp405414(9thed)Chapter19pp392399(10thed.).
Watch:http://media.hhmi.org/biointeractive/click/Gene_Switches/01vid.html

Homework:ContinuetoworkonHomework1DueWednesday,Sept7@11:00AM.TurninhomeworkviaClassesV.2.

MonSept5.Noclass,LaborDay.

WedSept7.InclassQUIZ#1,15min.Lecture3:Potency,StemCellsandEarlyDevelopment.
Wewilldiscussnuclearequivalenceandcytoplasmicinequivalence,totipotency,stemcells,iPScellsandearlydevelopmentalevents.Wewillintroducethe
conceptsofgainoffunctionandlossoffunction.

Reading:LifeChapter19,pp414425(9thed)Chapter19pp399411(10thed.)

Discussionsection:DiscussYoonandGolden,ScienceVol282pp935938,1998.Pleasereadthepaperpriortoattendingsection.(Annotatedpaperavailable
onClassesV.2)

Homework:Homework1DueToday@11:00AMTurninhomeworkviaClassesV.2.
StartHomework2

MonSept12.Lecture4:PatterningtheEarlyEmbryo.Wewilldiscussearlydevelopmentaleventswithanemphasisoncytoplasmicsegregation,establishmentof
polarity,andpatterning.Wewilldiscussmaternaleffects,homeosisanddoublemutantanalyses.

Reading,LifeChapter20,pp426433(9thed)Chapter20pp412420(10thed.)

Homework:Homework2DueToday@11:00AM.TurninhomeworkviaClassesV.2.
StartHomework3

WedSept14.InclassQUIZ#2,15min.Lecture5:PatterningandInduction.Wewillutilizeseveralexamplestoillustratetranscriptionalcontrolofpatterning,
conservationofdevelopmentalpathways,andtheconceptsofnecessityandsufficiencyofgeneactivity.Wewilldiscusscleavageandgastrulationanddescribe
severalinductiveeventsthatoccurduringearlydevelopment.

Reading:LifeChapter44pp922933(9thed)Chapter44pp902913(10thed.)

Discussionsection:DiscussIrishetal.,NatureVol338pp646648,1989.Pleasereadthepaperpriortoattendingsection.(Annotatedpaperavailableon
ClassesV.2)

StartHomework:Homework3DueMonday,Sept19@11:00AM.TurninhomeworkviaClassesV.2.

MonSept19.Lecture6:Organogenesis,LimbDevelopmentandApoptosis.Wewilldiscussneurulation,organogenesis,andlimbdevelopment,andtherolethat
inductiveinteractionsplayintheseprocesses.Wewillexaminetheroleofapoptosisinshapingdigitsandotherstructures.Wewilldiscussalterationsinlimband
digitdevelopment

Reading:LifeChapter44pp935940(9thed)Chapter44pp915921(10thed.)
Reading:TickleandBarkerreviewarticle:pages275278andsectionentitled:CHARACTERIZATIONOFSONICHEDGEHOGSIGNALINGAND
SPECIFICATIONOFANTEROPOSTERIORPATTERN(pages280281).(availableonclassesV.2)

Homework:Homework3DueToday@11:00AM.TurninhomeworkviaClassesV.2.
StartHomework4

WedSept21.InclassQUIZ#3,15min.Lecture7:TheCentralDogmaRevisited.Wewilldiscusshowchromatinmodifications,noncodingRNAs,andtransposons
canallaltertheexpressionofgenes.

Reading:LifeChapter16pp356362(9thed)Chapter16pp343348(10thed.)
Watch:https://www.youtube.com/watch?v=9AfBsTAQ8zs
Watch:https://www.youtube.com/watch?v=cKOGB1_ELE#t=285

Discussionsection:Problemsetandmidtermreview.Pleaseworkonproblemset(availableonclassesV.2)priortosection.

Homework:StartHomework4DueMonday,Sept26@11:00AM.TurninhomeworkviaClassesV.2.

MonSept26.Lecture8:Meiosis,Segregation,andGenetics(notyourgardenvariety).Wewilldiscussmeiosis,segregation,dominantandrecessiveallelesinthe
contextofhumandisorders.Wewillbegintodiscussrecombinationandlinkagemapping.

Reading:LifeChapter12236253(9thed)Chapter12pp232246(10thed.)

Homework:Homework4DueToday@11:00AM.TurninhomeworkviaClassesV.2.
StartHomework5

WedSept28.InclassQUIZ#4,15min.Lecture9:GeneticsandGenomics.Wewillcontinuetodiscusslinkagemapping.Wewilldiscusspersonalizedmedicine
andinvestigationsoftheunderlyinggeneticbasisofcomplextraits.

Reading:Life253256(9thed)Chapter12pp246249(10thed.)

Discussionsection:DiscussParkeretal.,ScienceVol325pp995998,2009.Pleasereadthepaperpriortoattendingsection.(annotatedpaperavailableon
ClassesV.2)

Homework:StartHomework5DueMon,Oct3@11:00AM.TurninhomeworkviaClassesV.2.

MonOct3.Lecture10:Sex.Wewilldiscusssexlinkedtraits,sexdetermination,anddosagecompensation.

Reading:LifeChapter12257259(9thed)Chapter12pp249252(10thed.)

Homework:Homework5DueToday@11:00AM.TurninhomeworkviaClassesV.2.

WedOct5.InclassQUIZ#5,15min.Lecture11:CellCycle,CancerandOncogenes.Wewilldiscusshowcanceriscaused,andtherelationshipsbetween
oncogenesandtumorsuppressorgenes.WewilldiscusstheactionofcarcinogensindisruptingtheDNA,andhowcancercausinggenesarerelatedto
developmentalgenes.

Reading,LifeChapter11pp230232(9thed)Chapter11pp227229(10thed.)

Discussionsection:2minutePowerpointpresentations

MonOct10.Lecture12:BiotechnologyandtheABCsofGMOs.WewilldiscussthebiologybehindGMOs.Wewilldiscusshowgeneticengineeringiscarriedout
andapplicationsofthistechnology.

Reading,LifeChapter18pp397403(9thed)Chapter18pp383389(10thed.)
Reading:http://www.nytimes.com/2014/01/05/us/onhawaiialonelyquestforfactsaboutgmos.html?_r=0

WedOct12.InclassEXAM,75min.
BIOL103Fall2016InfoandSyllabus.pdf