Molecular Advances in Wheat and Barley PDF
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International Journal o f Molecular Sciences Molecular Advances in Wheat and Barley Edited by Manuel Martinez Printed Edition of the Special Issue Published in International Journal of Molecular Sciences www.mdpi.com/journal/ijms Molecular Advances in Wheat and Barley Molecular Advances in Wheat and Barley SpecialIssueEditor ManuelMartinez MDPI•Basel•Beijing•Wuhan•Barcelona•Belgrade SpecialIssueEditor ManuelMartinez UniversidadPolitecnicadeMadrid Spain EditorialOffice MDPI St.Alban-Anlage66 4052Basel,Switzerland This is a reprint of articles from the Special Issue published online in the open access journal InternationalJournalofMolecularSciences (ISSN 1422-0067) from 2018 to 2019 (available at: https: //www.mdpi.com/journal/ijms/specialissues/WheatBarley) Forcitationpurposes,citeeacharticleindependentlyasindicatedonthearticlepageonlineandas indicatedbelow: LastName,A.A.; LastName,B.B.; LastName,C.C.ArticleTitle. JournalNameYear,ArticleNumber, PageRange. ISBN978-3-03921-371-9(Pbk) ISBN978-3-03921-372-6(PDF) (cid:2)c 2019bytheauthors. ArticlesinthisbookareOpenAccessanddistributedundertheCreative Commons Attribution (CC BY) license, which allows users to download, copy and build upon publishedarticles,aslongastheauthorandpublisherareproperlycredited,whichensuresmaximum disseminationandawiderimpactofourpublications. ThebookasawholeisdistributedbyMDPIunderthetermsandconditionsoftheCreativeCommons licenseCCBY-NC-ND. Contents AbouttheSpecialIssueEditor . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . vii ManuelMartinez EditorialforSpecialIssue“MolecularAdvancesinWheatandBarley” Reprintedfrom:Int.J.Mol.Sci.2019,20,3501,doi:10.3390/ijms20143501 . . . . . . . . . . . . . . 1 ClausKroghMadsenandHenrikBrinch-Pedersen MolecularAdvancesonPhytasesinBarleyandWheat Reprintedfrom:Int.J.Mol.Sci.2019,20,2459,doi:10.3390/ijms20102459 . . . . . . . . . . . . . . 6 MercedesDiaz-Mendoza,IsabelDiazandManuelMartinez InsightsontheProteasesInvolvedinBarleyandWheatGrainGermination Reprintedfrom:Int.J.Mol.Sci.2019,20,2087,doi:10.3390/ijms20092087 . . . . . . . . . . . . . . 16 IrisKoeppel,ChristianHertig,RobertHoffieandJochenKumlehn CasEndonucleaseTechnology—AQuantumLeapintheAdvancementofBarleyandWheat GeneticEngineering Reprintedfrom:Int.J.Mol.Sci.2019,20,2647,doi:10.3390/ijms20112647 . . . . . . . . . . . . . . 27 Muhammad Amjad Ali, Mahpara Shahzadi, Adil Zahoor, Abdelfattah A. Dababat, Halil Toktay,AllahBakhsh,MuhammadAzherNawazandHongjieLi Resistance to Cereal Cyst Nematodes in Wheat and Barley: An Emphasis on Classical and ModernApproaches Reprintedfrom:Int.J.Mol.Sci.2019,20,432,doi:10.3390/ijms20020432. . . . . . . . . . . . . . . 51 TuoQi,JiaGuo,HuanPeng,PengLiu,ZhenshengKangandJunGuo Host-InducedGeneSilencing:APowerfulStrategytoControlDiseasesofWheatandBarley Reprintedfrom:Int.J.Mol.Sci.2019,20,206,doi:10.3390/ijms20010206. . . . . . . . . . . . . . . 69 Alexey V. Pigolev, Dmitry N. Miroshnichenko, Alexander S. Pushin, Vasily V. Terentyev, AlexanderM.Boutanayev,SergeyV.DolgovandTatyanaV.Savchenko OverexpressionofArabidopsisOPR3inHexaploidWheat(TriticumaestivumL.)AltersPlant DevelopmentandFreezingTolerance Reprintedfrom:Int.J.Mol.Sci.2018,19,3989,doi:10.3390/ijms19123989 . . . . . . . . . . . . . . 84 MalikaAyadi,Faic¸alBriniandKhaledMasmoudi OverexpressionofaWheatAquaporinGene,TdPIP2;1,EnhancesSaltandDroughtTolerance inTransgenicDurumWheatcv.Maali Reprintedfrom:Int.J.Mol.Sci.2019,20,2389,doi:10.3390/ijms20102389 . . . . . . . . . . . . . . 101 MadhavBhatta, P.StephenBaenziger, BrianM.Waters, RachanaPoudel, VikasBelamkar, JessePolandandAlexeyMorgounov Genome-WideAssociationStudyRevealsNovelGenomicRegionsAssociatedwith10Grain MineralsinSyntheticHexaploidWheat Reprintedfrom:Int.J.Mol.Sci.2018,19,3237,doi:10.3390/ijms19103237 . . . . . . . . . . . . . . 122 RyoNishijima,KentaroYoshida,KoheiSakaguchi,Shin-ichiYoshimura,KazuhiroSatoand ShigeoTakumi RNA Sequencing-Based Bulked Segregant Analysis Facilitates Efficient D-genome Marker DevelopmentforaSpecificChromosomalRegionofSyntheticHexaploidWheat Reprintedfrom:Int.J.Mol.Sci.2018,19,3749,doi:10.3390/ijms19123749 . . . . . . . . . . . . . . 140 v Jinghuang Hu, Jingting Li, Peipei Wu, Yahui Li, Dan Qiu, Yunfeng Qu, Jingzhong Xie, HongjunZhang,LiYang,TiantianFu,YaweiYu,MengjuanLi,HongweiLiu,TongquanZhu, YangZhou,ZhiyongLiuandHongjieLi DevelopmentofSNP,KASP,andSSRMarkersbyBSR-SeqTechnologyforSaturationofGenetic LinkageMapandEfficientDetectionofWheatPowderyMildewResistanceGenePm61 Reprintedfrom:Int.J.Mol.Sci.2019,20,750,doi:10.3390/ijms20030750. . . . . . . . . . . . . . . 153 HarsimardeepS.Gill,ChunxinLi,JagdeepS.Sidhu,WenxuanLiu,DuaneWilson,Guihua Bai,BikramS.GillandSunishK.Sehgal FineMappingoftheWheatLeafRustResistanceGeneLr42 Reprintedfrom:Int.J.Mol.Sci.2019,20,2445,doi:10.3390/ijms20102445 . . . . . . . . . . . . . . 168 KaterˇinaPernicˇkova´,VeronikaKola´cˇkova´,AdamJ.Lukaszewski,ChaolanFan,JanVra´na, MartinDuchoslav,GlynJenkins,DylanPhillips,OlgaSˇamajova´,MichaelaSedla´rˇova´,Jozef Sˇamaj,JaroslavDolezˇelandDavidKopecky´ InstabilityofAlienChromosomeIntrogressionsinWheatAssociatedwithImproperPositioning intheNucleus Reprintedfrom:Int.J.Mol.Sci.2019,20,1448,doi:10.3390/ijms20061448 . . . . . . . . . . . . . . 180 HaimeiDu,ZongxiangTang,QiongDuan,ShuyaoTangandShulanFu Using the 6RLKu Minichromosome of Rye (Secale cereale L.) to Create Wheat-Rye 6D/6RLKu SmallSegmentTranslocationLineswithPowderyMildewResistance Reprintedfrom:Int.J.Mol.Sci.2018,19,3933,doi:10.3390/ijms19123933 . . . . . . . . . . . . . . 195 YinpingLiang,YeXia,XiaoliChang,GuoshuGong,JizhiYang,YutingHu,MadisonCahill, LiyaLuo,TaoLi,LuHeandMinZhang ComparativeProteomicAnalysisofWheatCarryingPm40ResponsetoBlumeriagraminisf.sp. triticiUsingTwo-DimensionalElectrophoresis Reprintedfrom:Int.J.Mol.Sci.2019,20,933,doi:10.3390/ijms20040933. . . . . . . . . . . . . . . 206 CyrineRobbana,ZakariaKehel,M’barekBenNaceur,CarolinaSansaloni,FilippoBassiand AhmedAmri Genome-WideGeneticDiversityandPopulationStructureofTunisianDurumWheatLandraces BasedonDArTseqTechnology Reprintedfrom:Int.J.Mol.Sci.2019,20,1352,doi:10.3390/ijms20061352 . . . . . . . . . . . . . . 224 Jianxin Bian, Pingchuan Deng, Haoshuang Zhan, Xiaotong Wu, Mutthanthirige D. L. C. Nishantha,ZhaoguiYan,XianghongDu,XiaojunNieandWeiningSong TranscriptionalDynamicsofGrainDevelopmentinBarley(HordeumvulgareL.) Reprintedfrom:Int.J.Mol.Sci.2019,20,962,doi:10.3390/ijms20040962. . . . . . . . . . . . . . . 245 VeronikaKapustova´,ZuzanaTulpova´,HelenaToegelova´,PetrNova´k,Jirˇ´ıMacas,Miroslava Karafia´tova´,EvaHrˇibova´,JaroslavDolezˇelandHanaSˇimkova´ TheDarkMatterofLargeCerealGenomes:LongTandemRepeats Reprintedfrom:Int.J.Mol.Sci.2019,20,2483,doi:10.3390/ijms20102483 . . . . . . . . . . . . . . 261 WeiXi,ZongxiangTang,ShuyaoTang,ZujunYang,JieLuoandShulanFu New ND-FISH-Positive Oligo Probes for Identifying Thinopyrum Chromosomes in WheatBackgrounds Reprintedfrom:Int.J.Mol.Sci.2019,20,2031,doi:10.3390/ijms20082031 . . . . . . . . . . . . . . 273 vi About the Special Issue Editor ManuelMartinezisaseniorresearcherinthePlantGenomicsandBiotechnologyCenter(CBGP).He receivedaPhDfromtheUniversidadComplutensedeMadridworkingincerealcytogenetics(1999). Then,hemovedtotheBiotechnologyDepartmentattheUniversidadPolite´cnicadeMadrid,witha Post-Docfellowshipfrom1999to2002toworkinplantmolecularbiology.AtthesameInstitution,he receivedaRamo´nyCajalresearchcontractin2003,acontractasAssistantProfessorfromDecember 2005,andapermanentcontractasAssociateProfessorin2012. InSeptember2008,hemovedtothe PlantGenomicsandBiotechnologyCentertocarryouthisresearchactivity. Atpresent,hebelongs to the UPM research group “plant-pest molecular interactions”. His research activity is focused onthemolecularcharacterizationofdefensegenesagainstpathogensandpests, therelationships betweenproteasesandtheirinhibitorswithsenescenceandgerminationmechanismsincereals,and thebioinformaticanalysisoftheevolutionandcompositionofgenefamilies. Hehascoauthorized morethan70researcharticlesininternationaljournalsandparticipatesasGuarantorResearcherinthe SeveroOchoagrantawardedbytheCBGP.Currently,hecarriesouthisteachingactivityindifferent coursesrelatedtoplantbiotechnologyandbioinformatics. vii International Journal o f Molecular Sciences Editorial Editorial for Special Issue “Molecular Advances in Wheat and Barley” ManuelMartinez1,2 1 CentrodeBiotecnologiayGenomicadePlantas(CBGP,UPM-INIA),UniversidadPolitecnicade, Madrid(UPM)-InstitutoNacionaldeInvestigacionyTecnologíaAgrariayAlimentaria(INIA),Campus, Montegancedo,PozuelodeAlarcon,28223Madrid,Spain;[email protected];Tel.:+34-910679149 2 DepartamentodeBiotecnologia-BiologiaVegetal,EscuelaTecnicaSuperiordeIngenieriaAgronomica, AlimentariaydeBiosistemas,UPM,28040Madrid,Spain Received:10July2019;Accepted:15July2019;Published:16July2019 Alongwithmaizeandrice,allohexaploidbreadwheatanddiploidbarleyarethemostcultivated cropsintheworld(FAOSTATdatabase,http://www.fao.org/faostat,accessedon22June2019).Their economicimportanceandcloserelationshipsupportsaparallelstudyofbothcereals. Nowadays, analysesbasedonhigh-throughputsequencinghavebecomeakeyapproachingenome-widebiology forcropimprovement.Advancesingenomicshaveresultedinthedevelopmentofnewtechnologies andstrategiesthatgivesupporttoexperimentalresearch.Inthiscontext,thereleaseofthegenomic sequencesofwheatandbarleyhaspermittedtheapplicationofgenome-scaleapproaches,suchasthose relatedtometabolomics,proteomics,transcriptomics,andphenomicsanalyses.Additionally,newtools forgeneidentification,suchareGenome-EditingandGenome-WideAssociationStudies,arebeing developed.Modernresearchbasedinthisnewtechnologicalscenarioisfocusedonunderstanding regulatorysystemsinordertoimprovecropproductivity. Thefinalgoalshouldbethefunctional genomicanalysisofgenesandregulatorynetworksthatcontrolimportantagronomictraitsand biologicalprocesses,suchasyield,grainquality,diseaseandpestresistance,nutrient-useefficiency, andabioticstressresistance.ThisSpecialIssueaimedtoreportnovelmolecularresearchandreviews relatedtowheatandbarleybiologyusingthesenewtechnologies.TheSpecialIssuepresentsatotalof 18articles(Table1). Fivearticlesarereviewscoveringdifferentaspectsofbothwheatandbarleycrops.Twoofthese reviewsarefocusedonunderstandingtheroleofphytasesandproteasesinthegrainusingnovel technologieswithanagronomicalgoal.Inthecaseofphytases,single-stomachedanimalsandhumans dependonphytasesuppliedthroughthediettohydrolyzephytateandmakeassociatednutrients,such asphosphorous,iron,andzinc,bioavailable.Thisreviewhighlightsadvancesintheunderstanding ofthemolecularbasisofthephytaseactivityandhowunderstandingthefunctionandregulation ofthePAPhy_agenemaysupportthedevelopmentofimprovedwheatandbarleywithevenhigher phytaseactivity[1].Proteasesarecrucialforthecontinuousreleaseofnutrientsfromtheendosperm totheembryotoachievethecorrectdevelopmentofthenewplantandtoavoidagronomicallosses duetotheabsenceofseedgermination.Manyadvanceshavebeenmadeinunderstandingtheroleof proteasesinthegrainduetotheirpotentialvalueforthebrewingindustryandtheirrelationshipwith celiacdisease.Noveltechnologieshavepermittedtheapplicationofgenome-scaleapproaches,suchas thoseusedinfunctionalgenomicsandproteomics,toincreasetherepertoireandknowledgeonthe barleyandwheatproteasesinvolvedingermination[2]. Int.J.Mol.Sci.2019,20,3501;doi:10.3390/ijms20143501 1 www.mdpi.com/journal/ijms
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