Microbial Biocontrol: Sustainable Agriculture and Phytopathogen Management: Volume 1

373 Pages·2022·6.185 MB·English

by  Ajay Kumar

Ajay Kumar   Editor
Microbial
Biocontrol:
Sustainable
Agriculture and
Phytopathogen
Management
Volume 1
Microbial Biocontrol: Sustainable Agriculture
and Phytopathogen Management
Ajay Kumar
Editor
Microbial Biocontrol:
Sustainable Agriculture
and Phytopathogen
Management
Volume 1
Editor
AjayKumar
PostharvestScience
AgricultureResearch
Organization,Volcanicentre,Israel
Rishon,Lezzion,Israel
ISBN978-3-030-87511-4 ISBN978-3-030-87512-1 (eBook)
https://doi.org/10.1007/978-3-030-87512-1
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Contents
1 BeneficialFungalStrain:MolecularApproachesinPlantDisease
Management. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1
HasanCan,MusaSeymen,andOnderTurkmen
1.1 Introduction. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3
1.2 CrossCommunicationBetweenKingdoms:Beginning
ofSymbiosis(InducedSystemicResistance). . . . . . . . . . . . . . 5
1.3 MolecularAspecttoBiocontrolMechanisms. . . . . . . . . . . . . 7
1.3.1 MolecularMechanismofCompetition-Mediated
Biocontrol. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 7
1.3.2 MolecularMechanismofMycoparasitism
(Hyperparasitism)-MediatedBiocontrol. . . . . . . . . . . 9
1.3.3 MolecularMechanismofAntibiosis-Mediated
Biocontrol. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11
1.3.4 MolecularMechanismofSiderophore-Mediated
Biocontrol. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 13
1.3.5 MolecularMechanismofHypovirulence-Mediated
Biocontrol. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 15
1.4 SomeModelFungalStrainandBiocontrolMechanism. . . . . . 16
1.4.1 AModelSpeciesofTrichodermassp.andMolecular
MechanismofPathogenManagement. . . . . . . . . . . . 16
1.4.2 AMFandMolecularMechanismofPathogen
Management. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 19
1.5 ConcludingRemarks. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 22
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 23
2 Host-InducedGeneSilencing:ApproachesinPlantDisease
Management. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 33
ÖmürBaysalandKubilayKurtulusBastas
2.1 Introduction. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 34
2.2 RNAiMechanism. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 35
2.3 Host-InducedGeneSilencing(HIGS)Method. . . . . . . . . . . . . 36
2.4 PosttranscriptionalGeneSilencing(PTGS). . . . . . . . . . . . . . . 38
vv
vi Contents
2.5 ClusteredRegularlyInterspacedShortPalindromicRepeats
(CRISPR)/Cas9. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 38
2.6 ViralBasedVectorsforHostandPathogenInteractions. . . . . . 39
2.7 SmallRNAsinPlantImmunity. . . . . . . . . . . . . . . . . . . . . . . 40
2.8 SecondarysiRNAsintheHIGSSystem. . . . . . . . . . . . . . . . . 41
2.9 HIGSStrategyAGAINSTPlantPathogenicViruses. . . . . . . . 42
2.10 HIGSStrategyAgainstPlantPathogenicBacteria. . . . . . . . . . 43
2.11 HIGSStrategyAgainstPlantPathogenicFungi. . . . . . . . . . . . 43
2.12 ConclusionandFuturePerspective. . . . . . . . . . . . . . . . . . . . . 45
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 46
3 PlantGrowthPromotingBacteria:AspectsinMetal
BioremediationandPhytopathogenManagement. . . . . . . . . . . . . . 51
AnaMariaQueijeiroLopez,AmandaLysDosSantosSilva,
FernandaCristinaDeAlbuquerqueMaranhão,
andLuizFernandoRomanholoFerreira
3.1 Introduction. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 52
3.2 TheImpactofHeavyMetalsintheEnvironment
andTheirBiologicalRemoval. . . . . . . . . . . . . . . . . . . . . . . . 60
3.3 PlantDiseaseControlbyGrowthPromotingBacteria. . . . . . . 65
3.4 TechniquesforScreeningofPlantGrowthPromoter
BacteriaforHMRemediationandPhytopathogenControl. . . . 68
3.5 ConcludingRemarks. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 70
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 71
4 LifeInsidePlants:InsightsintotheLifestyle,Diversity,and
MetabolitesofEndophyticBacteriaInvolvedinPlantDefense
AgainstPhytopathogens. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 79
B.N.Aloo,E.R.Mbega,B.A.Makumba,andJ.B.Tumuhairwe
4.1 Introduction. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 80
4.2 EndophyticLifestyle. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 81
4.3 DiversityofEndophyticBacteriaInvolvedinPlantDefense
AgainstPhytopathogens. . . . . . . . . . . . . . . . . . . . . . . . . . . . 83
4.4 EndophyticMetabolitesInvolvedinPlantDefenseAgainst
Phytopathogens. . . . . . . .. . . . . . . . . . . . . . . . . . . . . . . . .. . 88
4.4.1 Antibiotics. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 88
4.4.2 LyticEnzymes. . . . . . . . . . . . . . . . . . . . . . . . . . . . . 90
4.4.3 Siderophores. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 90
4.4.4 VolatileOrganicCompounds. . . . . . . . . . . . . . . . . . 96
4.5 EmergingGapsandPerspectives. . . . . . . . . . . . . . . . . . . . . . 97
4.6 ConcludingRemarks. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 99
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 100
5 PlantDiseaseManagementThroughMicrobiomeModulation. . . . 113
SairaAliandAsmaImran
5.1 Introduction. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 114
Contents vii
5.2 RhizosphereandtheMicrobiome. . . . . . . . . . . . . . . . . . . . . . 115
5.3 PlantGrowthPromotingRhizobacteria(PGPR). . . . . . . . . . . . 116
5.4 Biocontrol-PGPRandPlantDiseaseManagement. . . . . . . . . . 118
5.5 Microbiome-MediatedDiseaseManagementMechanisms. . . . 120
5.5.1 InducedSystemicResistance. . . . . . . . . . . . . . . . . . . 120
5.5.2 Competition. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 121
5.5.3 LyticEnzymes. . . . . . . . . . . . . . . . . . . . . . . . . . . . . 123
5.5.4 Antibiosis. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 123
5.6 RecentTrendsinMicrobiomeModulation. . . . . . . . . . . . . . . 132
5.6.1 HigherCellDensityInoculation. . . . . . . . . . . . . . . . 132
5.6.2 EngineeringofPlantMicrobiome. . . . . . . . . . . . . . . 132
5.7 ConclusionsandFuturePerspectives. . . . . . . . . . . . . . . . . . . 133
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 134
6 RhizosphereBacteriaandRhizobacterialFormulations:Small
WeaponsintheBigBattleofPlantDiseaseManagement. . . . . . . . 151
B.N.Aloo,B.A.Makumba,E.R.Mbega,andJ.B.Tumuhairwe
6.1 Introduction. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 152
6.2 MechanismsofRhizobacterialPlantDiseaseManagement. . . . 153
6.2.1 RhizobacterialMetabolites. . . . . . . . . . . . . . . . . . . . 153
6.2.2 InducedSystemicResistance. . . . . . . . . . . . . . . . . . . 164
6.3 AdvancesinCommercializationofRhizobacterial
FormulationsforPlantDiseaseManagement. . . . . . . . . . . . . . 166
6.4 ChallengesandOpportunities. . . . . . . . . . . . . . . . . . . . . . . . . 173
6.5 ConcludingRemarks. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 175
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 175
7 BiocontrolPotentialofMicrobialConsortia:Approaches
inFoodSecurityandDiseaseManagement. . . . . . . . . . . . . . . . . . . 187
HariomVerma,ChandraKant,SandeepKumarSingh,
JamesF.White,AjayKumar,andSamirDroby
7.1 Introduction. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 188
7.2 StructureandClassificationofMicrobialConsortia. . . . . . . . . 189
7.3 TheContributionsofMicrobialConsortiatoPhytopathogen
Control. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 190
7.4 ActionMechanismofMicrobialConsortia
inPhytopathogen’sManagement. . . . . . . . . . . . . . . . . . . . . . 190
7.4.1 AntibioticsProduction. . . . . . . . . . . . . . . . . . . . . . . 190
7.4.2 CellWall-DegradingEnzymes. . . . . . . . . . . . . . . . . 192
7.4.3 VolatileCompounds. . . . . . . . . . . . . . . . . . . . . . . . . 192
7.4.4 Siderophores. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 193
7.5 ApplicationofMicrobialConsortiainPhytopathogen
Management. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 193
7.6 ConclusionandFuturePerspective. . . . . . . . . . . . . . . . . . . . . 194
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 199
viii Contents
8 BioprospectingNew-GenerationBiocontrolStrategies:AViable
SolutionforAttainingAgriculturalSecurityandFoodSafety. . . . . 205
NitikaThakur
8.1 Introduction:ANeedTowardsaSustainableApproach
foraSustainableAgri-FoodCompatibility. . . . . . . . . . . . . . . 206
8.2 TheEraofBiocontrolManagement. . . . . . . . . . . . . . . . . . . . 206
8.3 TheAssociatedInteractionsandMechanismsofBiocontrol
Agents. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 207
8.4 TheWayforMicrosatelliteMarkers:DetectingSpecific
BiocontrolAgents. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 210
8.5 FutureDirectionandConclusion. . . . . . . . . . . . . . . . . . . . . . 211
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 211
9 Microbe-InducedPlantVolatilesandTheirRoleinPlant
DiseaseManagement. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 215
SwatiDasandAnandamayBarik
9.1 Introduction. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 216
9.2 Microbe-InducedPlantVolatiles. . . . . . . . . . . . . . . . . . . . . . 217
9.2.1 Rhizosphere-AssociatedMicrobes. . . . . . . . . . . . . . . 217
9.2.2 Phyllosphere-AssociatedMicrobes. . . . . . .. . . . . . . . 219
9.3 BiosynthesisofMicrobe-InducedPlantVolatiles. . . . . . . . . . . 224
9.4 ApplicationofMIPVs. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 227
9.5 FuturePerspective. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 228
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 229
10 MicrobialProteinElicitorsinPlantDefense. . . . . . . . . . . . . . . . . . 235
J.BeslinJoshi,D.Senthamilselvi,JulieA.Maupin-Furlow,
andSivakumarUthandi
10.1 Introduction. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 236
10.2 MicrobialProteinsandPeptidesinPlantDefense. . . . . . . . . . 236
10.3 Glycoproteins. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 239
10.4 HarpinProteins. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 240
10.5 Proteins/Peptides. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 242
10.6 ViralProteins. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 243
10.7 MicrobialProtein/PeptideSensingbyPlants. . . . . . . . . . . . . . 244
10.8 MolecularMechanismofDefenseGeneActivation
inPlants. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 245
10.9 Conclusion. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 247
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 248
11 MechanismofAntagonism:HyperparasitismandAntibiosis. . . . . . 257
SampatNehra,RajKumarGothwal,SiddhantDhingra,
AlokKumarVarshney,PooranSinghSolanki,PoonamMeena,
P.C.Trivedi,andP.Ghosh
11.1 Introduction. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 258
11.2 Mycoparasitism/Hyperparasitism. . . . . . . . . . . . . . . . . . . . . . 259
Contents ix
11.2.1 MycoparasitesofSoilbornePlantPathogens. . . . . . . . 260
11.2.2 NecrotrophicHyperparasitism. . . . . . . . . . . . . . . . . . 261
11.2.3 HyperparasitesofFoliarPathogens. . . . . . . . . . . . . . 262
11.2.4 BacteriaandAscomycetesasHyperparasites. . . . . . . 262
11.3 Antibiosis. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 263
11.3.1 AntibioticsProducedbyTrichodermaand
Gliocladiumspp.. . . . . . . . . . . . . . . . . . . . . . . . . . . 264
11.3.2 AntibioticsProducedbyBacteria. . . . . . . . . . . . . . . . 266
11.4 ImprovedBiocontrolActivitybyGeneticEngineering
inMicroorganisms. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 268
11.5 ImprovementofBiocontrolAbilityofTrichoderma. . . . . . . . . 269
11.6 ConcludingRemarks. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 270
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 271
12 RevivingBacktheEcologicalSustainabilityThroughMicrobial
Bioprospection. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 279
NitikaThakur,RachitSood,andShobhikaParmar
12.1 Introduction:ExploringtheBiodiversityofEndophytes. . . . . . 280
12.1.1 CategorizingVariousEndophyticSources:Fungal,
Bacterial,andAlgal. . . . . . . . . . . . . . . . . . . . . . . . . 281
12.2 Endophytic-HostPlantInteraction. . . . . . . . . . . . . . . . . . . . . 283
12.3 BioprospectingEndophytesforTheirPotentialApplication
inEnvironmentalSustainabilityandSafety. . . . . . . . . . . . . . . 285
12.3.1 NutrientCycling. . . . . . . . .. . . . . . . . .. . . . . . . . .. 285
12.3.2 RoleofEndophytesinPromotionofPlantGrowth
andHealth. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 286
12.4 Conclusion. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 294
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 297
13 BiogenicNanoparticlesasNovelBiocontrolAgents. . . . . . . . . . . . . 301
SougataGhoshandBishwarupSarkar
13.1 Introduction. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 302
13.2 BiogenicNanoparticlesforBiocontrol. . . . . . . . . . . . . . . . . . 303
13.2.1 BacteriogenicNanoparticles. . . . . . . . . . . . . . . . . . . 303
13.2.2 MycogenicNanoparticles. . . . . . . . . . . . . . . . . . . . . 309
13.2.3 PhytogenicNanoparticles. . . . . . . . . . . . . . . . . . . . . 313
13.3 ConclusionsandFuturePerspectives. . . . . . . . . . . . . . . . . . . 317
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 318
14 MolecularGeneticsofBioticStressManagementforCrop
Improvement. . . . . . . .. . . . . . . .. . . . . . . .. . . . . . . . .. . . . . . . .. 323
AlkeshHada,M.S.MohamedJaabir,S.Velmurugan,
ChunotiChangwal,andAnilKumar
14.1 Introduction. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 325
14.2 ApproachesforSustainableCropImprovementUsing
WildRelatives. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 326
x Contents
14.3 ModernBreedingMethodsandGeneticEngineering
ApproachforCropImprovements. . . . . . . . . . . . . . . . . . . . . 328
14.4 CropImprovementsUsingRNAi-MediatedGene
Silencing. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 330
14.5 InsectsandItsResistancetoCropImprovement. . . . . . . . . . . 331
14.6 ViralDiseasesandItsManagementsforCrop
Improvement. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 332
14.6.1 RoleofCoatProteininViralPathogenesis. . . . . . . . . 334
14.7 BacterialDiseasesandItsManagements. . . . . . . . . . . . . . . . . 336
14.8 FungalDiseasesandCropImprovements. . . . . . . . . . . . . . . . 337
14.9 NematodeDiseasesandItsManagementsforCrop
Improvements. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 338
14.10 ConclusionandFuturePerspective. . . . . . . . . . . . . . . . . . . . . 342
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 342
15 BioprimingofSeedsforPlantDiseaseTolerance
andPhytopathogenManagement. . . . . . . . . . . . . . . . . . . . . . . . . . 355
NalikaPriyanwadaRanathunge
15.1 Introduction. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 355
15.2 WhatIsSeedPriming. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 357
15.3 SignificanceofSeedPriming. . . . . . . . . . . . . . . . . . . . . . . . . 357
15.4 TypesofSeedPriming. . . . . . . . . . . . . . . . . . . . . . . . . . . . . 358
15.5 SeedBiopriming. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 358
15.6 BioprimingProcedure. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 358
15.7 BenefitsofSeedBiopriming. . . . . . . . . . . . . . . . . . . . . . . . . 359
15.8 SeedBioprimingwithPlantGrowth-Promoting
Rhizobacteria(PGPR). . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 360
15.9 SeedBioprimingwithPlantGrowth-Promoting
Fungi(PGPF). . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 361
15.10 MechanismsInvolvedinSeedBiopriming
andSubsequentDiseaseToleranceinPlants. . . . . . . . . . . . . . 361
15.11 ApplicationofBioprimingforDiseaseResistance
(SomePracticalExamples). . . . . . . . . . . . . . . . . . . . . . . . . . 362
15.12 ConstraintsofBiopriming. . . . . . . . . . . . . . . . . . . . . . . . . . . 362
15.13 ConclusionandFutureProspects. . . . . . . . . . . . . . . . . . . . . . 364
References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 365