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P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome Molecular Research in Aquaculture P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome Molecular Research in Aquaculture Ken Overturf A John Wiley & Sons, Ltd., Publication P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome Editionfirstpublished2009 (cid:1)c 2009BlackwellPublishing Chapters1,2,3,5,12,and13aretheworkoftheU.S.GovernmentandarenotsubjecttoU.S.copyright. BlackwellPublishingwasacquiredbyJohnWiley&SonsinFebruary2007.Blackwell’spublishing programhasbeenmergedwithWiley’sglobalScientific,Technical,andMedicalbusinesstoform Wiley-Blackwell. EditorialOffice 2121StateAvenue,Ames,Iowa50014-8300,USA Fordetailsofourglobaleditorialoffices,forcustomerservices,andforinformationabouthowtoapply forpermissiontoreusethecopyrightmaterialinthisbook,pleaseseeourwebsiteat www.wiley.com/wiley-blackwell. Authorizationtophotocopyitemsforinternalorpersonaluse,ortheinternalorpersonaluseofspecific clients, is granted by Blackwell Publishing, provided that the base fee is paid directly to the Copyright ClearanceCenter,222RosewoodDrive,Danvers,MA01923.Forthoseorganizationsthathavebeen grantedaphotocopylicensebyCCC,aseparatesystemofpaymentshasbeenarranged.Thefeecodesfor usersoftheTransactionalReportingServiceareISBN-13:978-0-8138-1851-1/2009. Designationsusedbycompaniestodistinguishtheirproductsareoftenclaimedastrademarks.Allbrand namesandproductnamesusedinthisbookaretradenames,servicemarks,trademarks,orregistered trademarksoftheirrespectiveowners.Thepublisherisnotassociatedwithanyproductorvendor mentionedinthisbook.Thispublicationisdesignedtoprovideaccurateandauthoritativeinformationin regardtothesubjectmattercovered.Itissoldontheunderstandingthatthepublisherisnotengagedin renderingprofessionalservices.Ifprofessionaladviceorotherexpertassistanceisrequired,theservices ofacompetentprofessionalshouldbesought. LibraryofCongressCataloging-in-PublicationData Overturf,Ken. Molecularresearchinaquaculture/KenOverturf.–1sted. p.cm. Includesbibliographicalreferencesandindex. ISBN-13:978-0-8138-1851-1(alk.paper) ISBN-10:0-8138-1851-6(alk.paper) 1.Aquaculture–Research. 2.Molecularbiology–Research. I.Title. SH153.5.O942009 639.8–dc22 2009009391 AcatalogrecordforthisbookisavailablefromtheU.S.LibraryofCongress. Setin10/12ptDutch801BTbyAptaraInc.,NewDelhi,India PrintedinSingapore Disclaimer Thepublisherandtheauthormakenorepresentationsorwarrantieswithrespecttotheaccuracyor completenessofthecontentsofthisworkandspecificallydisclaimallwarranties,includingwithout limitationwarrantiesoffitnessforaparticularpurpose.Nowarrantymaybecreatedorextendedbysales orpromotionalmaterials.Theadviceandstrategiescontainedhereinmaynotbesuitableforevery situation.Thisworkissoldwiththeunderstandingthatthepublisherisnotengagedinrenderinglegal, accounting,orotherprofessionalservices.Ifprofessionalassistanceisrequired,theservicesofa competentprofessionalpersonshouldbesought.Neitherthepublishernortheauthorshallbeliablefor damagesarisingherefrom.ThefactthatanorganizationorWebsiteisreferredtointhisworkasa citationand/orapotentialsourceoffurtherinformationdoesnotmeanthattheauthororthepublisher endorsestheinformationtheorganizationorWebsitemayprovideorrecommendationsitmaymake. Further,readersshouldbeawarethatInternetWebsiteslistedinthisworkmayhavechangedor disappearedbetweenwhenthisworkwaswrittenandwhenitisread. 1 2009 P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome Contents Preface vii ListofContributors ix Chapter1. ConvergenceofAquacultureandMolecularBiology 1 KenOverturf Chapter2. BasicMolecularLaboratoryMethods 15 KenOverturf Chapter3. QuantitativePCR 39 KenOverturf Chapter4. Aquaculture-RelatedApplicationsofDNAMicroarray Technology 63 MatthewL.Rise,ZhanjiangLiu,SusanE.Douglas,LauraL. Brown,JohnH.E.Nash,andMargaretJ.McFall-Ngai Chapter5. AquacultureGenomics 103 YnivPalti Chapter6. ProteomicsinAquaculture 147 SamuelA.M.Martin Chapter7. TheRoleofModelOrganismsinAquacultureResearch: TransientandPermanentAdvantages 175 BarrieRobison Chapter8. ClonalLinesandChromosomeManipulationforAquaculture ResearchandProduction 195 KristaM.Nichols Chapter9. IssuesandMethodologyforDevelopmentofTransgenicFish forAquaculturewithaFocusonGrowthEnhancement 217 RobertH.Devlin,PeterA.Raven,L.FredrikSundstro¨m,and MitchellUh Chapter10. MolecularRegulationofIntermediaryMetabolismFocusing onUtilizationofDietaryCarbohydrates 261 St´ephanePanserat Chapter11. MuscleRegulation 279 PeggyR.Biga Chapter12. MicrobialGenomicsofAquaculturePathogens 315 GregoryD.Wiens Chapter13. ControlofReproduction 337 GregoryM.Weber Index 383 v P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome Preface The aim of this book is to provide a basic understanding of the modern molecular techniquescurrentlyusedinaquacultureresearch,primarilyfinfishaquaculture,such that readers can develop an understanding of both the power and limitations of molecular biology. Recently, in the scientific literature, there has been a profusion of information pertaining to genetics, genomics, transcriptomics, proteomics, and otherrelatedbuzzwordsmeanttodescribemolecularresearchrelatingcellularevents to physiological traits. The material covered in the chapters of this book provides backgroundtonewcomersinterestedinmoleculartechniquesandadescriptionofthe currentstateofresearchandscientificunderstandingofgeneregulationinregardsto physiologicalareasimportanttoaquaculture.Forresearcherscurrentlyworkinginthe field on specific genes, pathways, or traits, this text provides invaluable information thatrelatesmolecularfunctiontofishphysiology. vii P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome

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Molecular Research in AquacultureMolecular research and biotechnology have long been fields of study with applications useful to aquaculture and other animal sciences. Molecular Research in Aquaculture looks to provide an understanding of molecular research and its applications to the aquaculture in
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P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome Molecular Research in Aquaculture P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome Molecular Research in Aquaculture Ken Overturf A John Wiley & Sons, Ltd., Publication P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome Editionfirstpublished2009 (cid:1)c 2009BlackwellPublishing Chapters1,2,3,5,12,and13aretheworkoftheU.S.GovernmentandarenotsubjecttoU.S.copyright. BlackwellPublishingwasacquiredbyJohnWiley&SonsinFebruary2007.Blackwell’spublishing programhasbeenmergedwithWiley’sglobalScientific,Technical,andMedicalbusinesstoform Wiley-Blackwell. EditorialOffice 2121StateAvenue,Ames,Iowa50014-8300,USA Fordetailsofourglobaleditorialoffices,forcustomerservices,andforinformationabouthowtoapply forpermissiontoreusethecopyrightmaterialinthisbook,pleaseseeourwebsiteat www.wiley.com/wiley-blackwell. Authorizationtophotocopyitemsforinternalorpersonaluse,ortheinternalorpersonaluseofspecific clients, is granted by Blackwell Publishing, provided that the base fee is paid directly to the Copyright ClearanceCenter,222RosewoodDrive,Danvers,MA01923.Forthoseorganizationsthathavebeen grantedaphotocopylicensebyCCC,aseparatesystemofpaymentshasbeenarranged.Thefeecodesfor usersoftheTransactionalReportingServiceareISBN-13:978-0-8138-1851-1/2009. Designationsusedbycompaniestodistinguishtheirproductsareoftenclaimedastrademarks.Allbrand namesandproductnamesusedinthisbookaretradenames,servicemarks,trademarks,orregistered trademarksoftheirrespectiveowners.Thepublisherisnotassociatedwithanyproductorvendor mentionedinthisbook.Thispublicationisdesignedtoprovideaccurateandauthoritativeinformationin regardtothesubjectmattercovered.Itissoldontheunderstandingthatthepublisherisnotengagedin renderingprofessionalservices.Ifprofessionaladviceorotherexpertassistanceisrequired,theservices ofacompetentprofessionalshouldbesought. LibraryofCongressCataloging-in-PublicationData Overturf,Ken. Molecularresearchinaquaculture/KenOverturf.–1sted. p.cm. Includesbibliographicalreferencesandindex. ISBN-13:978-0-8138-1851-1(alk.paper) ISBN-10:0-8138-1851-6(alk.paper) 1.Aquaculture–Research. 2.Molecularbiology–Research. I.Title. SH153.5.O942009 639.8–dc22 2009009391 AcatalogrecordforthisbookisavailablefromtheU.S.LibraryofCongress. Setin10/12ptDutch801BTbyAptaraInc.,NewDelhi,India PrintedinSingapore Disclaimer Thepublisherandtheauthormakenorepresentationsorwarrantieswithrespecttotheaccuracyor completenessofthecontentsofthisworkandspecificallydisclaimallwarranties,includingwithout limitationwarrantiesoffitnessforaparticularpurpose.Nowarrantymaybecreatedorextendedbysales orpromotionalmaterials.Theadviceandstrategiescontainedhereinmaynotbesuitableforevery situation.Thisworkissoldwiththeunderstandingthatthepublisherisnotengagedinrenderinglegal, accounting,orotherprofessionalservices.Ifprofessionalassistanceisrequired,theservicesofa competentprofessionalpersonshouldbesought.Neitherthepublishernortheauthorshallbeliablefor damagesarisingherefrom.ThefactthatanorganizationorWebsiteisreferredtointhisworkasa citationand/orapotentialsourceoffurtherinformationdoesnotmeanthattheauthororthepublisher endorsestheinformationtheorganizationorWebsitemayprovideorrecommendationsitmaymake. Further,readersshouldbeawarethatInternetWebsiteslistedinthisworkmayhavechangedor disappearedbetweenwhenthisworkwaswrittenandwhenitisread. 1 2009 P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome Contents Preface vii ListofContributors ix Chapter1. ConvergenceofAquacultureandMolecularBiology 1 KenOverturf Chapter2. BasicMolecularLaboratoryMethods 15 KenOverturf Chapter3. QuantitativePCR 39 KenOverturf Chapter4. Aquaculture-RelatedApplicationsofDNAMicroarray Technology 63 MatthewL.Rise,ZhanjiangLiu,SusanE.Douglas,LauraL. Brown,JohnH.E.Nash,andMargaretJ.McFall-Ngai Chapter5. AquacultureGenomics 103 YnivPalti Chapter6. ProteomicsinAquaculture 147 SamuelA.M.Martin Chapter7. TheRoleofModelOrganismsinAquacultureResearch: TransientandPermanentAdvantages 175 BarrieRobison Chapter8. ClonalLinesandChromosomeManipulationforAquaculture ResearchandProduction 195 KristaM.Nichols Chapter9. IssuesandMethodologyforDevelopmentofTransgenicFish forAquaculturewithaFocusonGrowthEnhancement 217 RobertH.Devlin,PeterA.Raven,L.FredrikSundstro¨m,and MitchellUh Chapter10. MolecularRegulationofIntermediaryMetabolismFocusing onUtilizationofDietaryCarbohydrates 261 St´ephanePanserat Chapter11. MuscleRegulation 279 PeggyR.Biga Chapter12. MicrobialGenomicsofAquaculturePathogens 315 GregoryD.Wiens Chapter13. ControlofReproduction 337 GregoryM.Weber Index 383 v P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome Preface The aim of this book is to provide a basic understanding of the modern molecular techniquescurrentlyusedinaquacultureresearch,primarilyfinfishaquaculture,such that readers can develop an understanding of both the power and limitations of molecular biology. Recently, in the scientific literature, there has been a profusion of information pertaining to genetics, genomics, transcriptomics, proteomics, and otherrelatedbuzzwordsmeanttodescribemolecularresearchrelatingcellularevents to physiological traits. The material covered in the chapters of this book provides backgroundtonewcomersinterestedinmoleculartechniquesandadescriptionofthe currentstateofresearchandscientificunderstandingofgeneregulationinregardsto physiologicalareasimportanttoaquaculture.Forresearcherscurrentlyworkinginthe field on specific genes, pathways, or traits, this text provides invaluable information thatrelatesmolecularfunctiontofishphysiology. vii P1:OTE/OTE/SPH P2:OTE BLBS039-FM BLBS039-Overturf June10,2009 10:43 PrinterName:YettoCome

Description:
Molecular Research in AquacultureMolecular research and biotechnology have long been fields of study with applications useful to aquaculture and other animal sciences. Molecular Research in Aquaculture looks to provide an understanding of molecular research and its applications to the aquaculture in
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