Stem Cell Heterogeneity: Methods and Protocols

405 Pages·2016·7.048 MB·English

by  Kursad Turksen

Methods in
Molecular Biology 1516
Editor
Kursad Turksen
Stem Cell
Heterogeneity
Methods and Protocols
M M B
ETHODS IN OLECULAR IO LO GY
SeriesEditor
JohnM.Walker
School of Lifeand MedicalSciences
University ofHertfordshire
Hatfield, Hertfordshire, UK
Forfurther volumes:
http://www.springer.com/series/7651

Stem Cell Heterogeneity
Methods and Protocols
Edited by
Kursad Turksen
Ottawa Hospital Research Institute
Ottawa, ON, Canada
Editor
KursadTurksen
OttawaHospitalResearchInstitute
Ottawa,ON,Canada
ISSN1064-3745 ISSN1940-6029 (electronic)
MethodsinMolecularBiology
ISBN978-1-4939-6549-6 ISBN978-1-4939-6550-2 (eBook)
DOI10.1007/978-1-4939-6550-2
LibraryofCongressControlNumber:2016950593
©SpringerScience+BusinessMediaNewYork2016
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Preface
A long-held tenet in the stem cell field was the belief that stem cells—defined by their
capacity for self-renewal and lineage developmental capacities—comprised a homogeneous
population.Manystudieswithisolatedpopulationsofstemcellsweredesignedandanalyzed
with this principle in mind. Nevertheless, with time, a variety of types of studies and data
suggested that heterogeneous populations or subpopulations of stem cells exist. In this
volume,Ihavepulledtogetheraseriesofprotocolsthataddressdifferentaspectsofstemcell
heterogeneity.Iamverygratefultothecontributorsfortheirtimeandgenerosityinputting
together theirconceptsandprotocols.
Once again, I would like to thank Dr. John Walker, Editor in Chief of the Methods in
MolecularBiologyseries,forhissupportandencouragement.
IamgratefultoPatrickMarton,SeniorEditoroftheMethodsinMolecularBiologyseries,
forhiscontinuoussupportthroughouttheproject.
A special“thankyou” goesto DavidCasey,Editor oftheMethodsin MolecularBiology
series,forhistirelesseffortsandsupportduringthefinalstagesofthevolumeproduction.
Ottawa,ON,Canada KursadTurksen
v

Contents
Preface ..................................................................... v
Contributors................................................................. ix
HeterogeneityofStemCells:ABriefOverview ................................. 1
Gy¨orgyiMu˝zesandFerencSipos
EstablishmentandCharacterizationofNa¨ıvePluripotencyinHuman
EmbryonicStemCells ....................................................... 13
SharatWarrier,MinaPopovic,MargotVanderJeught,
andBj¨ornHeindryckx
AnEffectiveandReliableXeno-freeCryopreservationProtocol
forSingleHumanPluripotentStemCells ...................................... 47
GuoliangMeng,AnnaPoon,ShiyingLiu,andDerrickE.Rancourt
ClonalAnalysisofCellswithCellularBarcoding:WhenNumbers
andSizesMatter ............................................................ 57
LeonidV.BystrykhandMirjamE.Belderbos
AnalysisofCellCycleStatusofMurineHematopoieticStemCells ................ 91
KrzysztofSzade,KarolinaBukowska-Strakova,MonikaZukowska,
AlicjaJozkowicz,andJo´zefDulak
DissectingTranscriptionalHeterogeneityinPluripotency:SingleCell
AnalysisofMouseEmbryonicStemCells ...................................... 101
AnaM.V.Guedes,DomingosHenrique,andElsaAbranches
GenerationofRegionallySpecificNeuralProgenitorCells(NPCs)
andNeuronsfromHumanPluripotentStemCells(hPSCs) ...................... 121
JoshCutts,NicholasBrookhouser,andDavidA.Brafman
IsolationandCultureofEmbryonicStemCells,MesenchymalStemCells,
andDendriticCellsfromHumansandMice.................................... 145
SrabaniKar,ShinjiniMitra,andEnaRayBanerjee
DecodingtheEpigeneticHeterogeneityofHumanPluripotentStemCells
withSeamlessGeneEditing .................................................. 153
AmarM.Singh,DustinW.Perry,ValeriyaV.AdjanSteffey,
KennethMiller,andDanielW.Allison
StencilMicropatterning forSpatialControlofHumanPluripotent
StemCellFateHeterogeneity................................................. 171
JunYuan,GeetikaSahni,andYi-ChinToh
VisualizingtheFunctionalHeterogeneityofMuscleStemCells................... 183
YasuoKitajima,ShizukaOgawa,andYusukeOno
IsolationandExpansionofMusclePrecursorCellsfromHuman
SkeletalMuscleBiopsies...................................................... 195
ChiaraFranzin,MartinaPiccoli,LucaUrbani,CarloBiz,
PiergiorgioGamba,PaoloDeCoppi,andMichelaPozzobon
vii
viii Contents
MeasuringATPConcentrationinaSmallNumberofMurine
HematopoieticStemCells.................................................... 205
KrzysztofSzade,MonikaZukowska,AlicjaJozkowicz,andJozefDulak
GrowthFactor-FreePre-vascularizationofCellSheetsforTissueEngineering...... 219
MarinaCosta,Roge´rioP.Pirraco,MarianaT.Cerqueira,
RuiL.Reis,andAlexandraP.Marques
InVitroCultureofHumanHematopoieticStemCellsinSerumFree
MediumandTheirMonitoringbyFlowCytometry ............................. 227
MarcCloutier,ChristineJobin,CarlSimard,andSoniaNe´ron
Aerosol-BasedCellTherapyforTreatmentofLungDiseases ..................... 243
EgiKardia,NurShuhaidatulSarmizaAbdulHalim,
andBadrulHishamYahaya
InductionofInnerEarHairCellsfromMouseEmbryonic
StemCellsInVitro.......................................................... 257
MasahideYoshikawaandYukiteruOuji
MaintenanceofDermalPapillaCellsbyWnt-10bInVitro ....................... 269
YukiteruOujiandMasahideYoshikawa
MaintenanceofSkinEpithelialStemCellsbyWnt-3aInVitro.................... 279
YukiteruOujiandMasahideYoshikawa
Enzyme-FreeDissociationofNeurospheresbyaMicrofluidic
Chip-BasedMethod......................................................... 289
Ching-HuiLin,Hao-ChenChang,andChia-HsienHsu
AutomatedCell-BasedQuantitationof8-OHdGDamage........................ 299
BilgeDebelec-Butuner,AykutBostancı,LisaHeiserich,
CarolineEberle,FilizOzcan,MutayAslan,DirkRoggenbuck,
andKemalSamiKorkmaz
CoCl AdministrationtoVascularMSCCulturesasanInVitro
2
HypoxicSystemtoStudyStemCellSurvivalandAngiogenesis ................... 309
CarmenCiavarella,SilviaFittipaldi,andGianandrea Pasquinelli
ReporterSystemstoStudyCancerStemCells .................................. 319
CanerSaygin,MohamedSamour,AnastasiaChumakova,
AwadJarrar,JustinD.Lathia,andOferReizes
Agent-BasedModelingofCancerStemCellDrivenSolidTumorGrowth.......... 335
JanPoleszczuk,PaulMacklin,andHeikoEnderling
InductionofaTumor-Metastasis-ReceptiveMicroenvironment
asanUnwantedSideEffectAfterRadio/Chemotherapy
andInVitroandInVivoAssaystoStudythisPhenomenon...................... 347
GabrielaSchneider,ZachariahPayneSellers,andMariuszZ.Ratajczak
IsolationandPropagationofGliomaStemCellsfromAcutelyResectedTumors.... 361
JinkyuJung,MarkR.Gilbert,andDericM.Park
IsolationandCharacterizationofCancerStemCells
oftheNon-Small-CellLungCancer(A549)CellLine........................... 371
NoorHanisAbuHalim,NorashikinZakaria,
NazilahAbdulSatar,andBadrulHishamYahaya
Index ...................................................................... 389
Contributors
ELSAABRANCHES (cid:2) DHenriqueLab,InstitutodeMedicinaMolecular,Faculdade
deMedicina,UniversidadedeLisboa,Lisbon,Portugal;InstitutodeHistologia
eBiologiadoDesenvolvimento,Lisbon,Portugal
DANIELW.ALLISON (cid:2) TransposagenBiopharmaceuticals, Inc.,Lexington,KY,USA
MUTAYASLAN (cid:2) MassSpec.Laboratory,DepartmentofBiochemistry,FacultyofMedicine,
AkdenizUniversity,Antalya,Turkey
ENARAYBANERJEE (cid:2) ImmunologyandRegenerativeMedicineResearchLaboratory,
UniversityofCalcutta,Kolkata,WestBengal,India;DepartmentofZoology,
UniversityofCalcutta,Kolkata,WestBengal,India
MIRJAME.BELDERBOS (cid:2) LaboratoryofAgeingBiologyandStemCells,European
ResearchInstitutefor theBiologyofAgeing,UniversityMedicalCenterGroningen,
UniversityofGroningen,Groningen,AV,TheNetherlands;DepartmentofPediatrics,
UniversityMedicalCenterGroningen,Groningen,AV,TheNetherlands
CARLOBIZ (cid:2) DepartmentofSurgery,OncologyandGastroenterology,DiSCOG,
OrthopedicClinic,UniversityofPadova,Padova,Italy
AYKUTBOSTANCI (cid:2) CancerBiologyLaboratory,DepartmentofBioengineering,
FacultyofEngineering,EgeUniversity,Bornova,Izmir,Turkey
DAVIDA.BRAFMAN (cid:2) SchoolofBiologicalandHealthSystemsEngineering,
ArizonaStateUniversity,Tempe,AZ,USA
NICHOLASBROOKHOUSER (cid:2) SchoolofBiologicalandHealthSystemsEngineering,
ArizonaStateUniversity,Tempe,AZ,USA
KAROLINABUKOWSKA-STRAKOVA (cid:2) DepartmentofMedicalBiotechnology,
FacultyofBiochemistry,BiophysicsandBiotechnology,JagiellonianUniversity,
Krakow,Poland
LEONID V.BYSTRYKH (cid:2) LaboratoryofAgeingBiologyandStemCells,EuropeanResearch
Institutefor theBiologyofAgeing,UniversityMedicalCenterGroningen,Universityof
Groningen,Groningen,AV,TheNetherlands
MARIANAT.CERQUEIRA (cid:2) 3B’sResearchGroup—Biomaterials,Biodegradables,
andBiomimetics,UniversityofMinho,HeadquartersoftheEuropeanInstitute
ofExcellenceonTissueEngineeringandRegenerativeMedicine,Guimara˜es,Portugal;
2-ICVS-3B’s—PTGovernmentAssociateLaboratory,Braga/Guimara˜es,Portugal
HAO-CHENCHANG (cid:2) NationalHealthResearchInstitutes,ZhunanTown,MiaoliCounty,
Taiwan
ANASTASIACHUMAKOVA (cid:2) DepartmentofCellularandMolecularMedicine,LernerResearch
Institute,ClevelandClinic,Cleveland,OH,USA
CARMENCIAVARELLA (cid:2) DepartmentofExperimental,DiagnosticandSpecialtyMedicine
(DIMES)S.Orsola-MalpighiHospital,UniversityofBologna,Bologna,Italy
MARCCLOUTIER (cid:2) RechercheetDe´veloppement,He´ma-Que´bec,Quebec,QC,Canada
PAOLODECOPPI (cid:2) StemCellsandRegenerativeMedicineSection,DevelopmentalBiology
andCancerProgramme,UCLInstituteofChildHealthandGreatOrmondStreet
Hospital,London,UK
MARINACOSTA (cid:2) 3B’sResearchGroup—Biomaterials,Biodegradables,andBiomimetics,
UniversityofMinho,HeadquartersoftheEuropeanInstituteofExcellenceonTissue
ix