Swamy fcssp

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Swamy fcssp

  1. 1. Molecular Breeding for Improving Drought Tolerance in Rice Mega Varieties: Progress at IRRI 21FCSSP, Scientific Conference May 9-14, 2011 B.P. Mallikarjuna Swamy
  2. 2. “I challenge the next generation to use new scientific tools and techniques to address the problems that plague the world’s poor.” Dr. Norman Borlaug Combination of Breeding and Biotechnology hastens the process of development of Commercial ProductsMarker based technology is successfully beingused in plant breeding to address the complex problems
  3. 3. “Drought” may mean physical water scarcity constrains growth or developmentprocess affects the normal crop managementpracticesDonor Yield Yield 7000 Stress Non- Yield of cultivar (kg ha-1) 6000 stress 5000 kg ha-1 4000MTU1001 312 5825 3000Madhuri line 9 312 4957Nidhi 356 4963 2000IR64 278 4685 1000Mahamaya 318 4344 0 Severe Moderate ControlSwarna 312 5822 stress level Mahamaya Sambha MahsuriMarker Assisted Breeding is more precise, cost effective and time saving technology to address the complex problem of drought
  4. 4. Drought at which stage? • Drought can appear at any stage of the rice crop- seedling, vegetative, reproductive; • One at reproductive stage is highly damaging, highly prevalent 57 64 69 73 78 85 90 95 Control Lafitte, unpublishedO’Toole 1982
  5. 5. What new now that can make difference?Earlier At presentSecondary trait based Selection for grain yield itselfselection Combine yield potential with drought toleranceTraditional donors Improved donors with good combining abilityVariable phenotyping Standardized phenotyping 65-85% yield reductionSecondary traits QTLs Yield QTLsAdvanced tools for MB not in Advanced MB tools availablehandAdvance generations testing Early generations testing under droughtunder droughtLess drought occurrence-less Water scarcity realized- efforts enhancedsincere effortsLess Funding, commitment Increased funding and commitment
  6. 6. Drought molecular Breeding at IRRI: Strategy• Use traditional/wild donors in mapping populations• Identify major drought yield QTLs• Validation of major effect QTLs genetic backgrounds environments meta analysis comparative genomics• Introgression of QTLs in improved drought susceptible varieties• Physiological and molecular mechanism of drought QTLs aim is to produce more crop per drop of water
  7. 7. Major drought yield QTLs in background of improved popular varieties Genetic AdditiveBackground QTLs Ecosystem effect % mean Vandna DTY12.1 Upland 47 IR64 DTY1.1 Lowland 32 IR64 DTY9.1 Lowland 27 IR64 DTY10.1 Lowland 22 IR64 DTY2.1 Lowland 13 IR64 DTY4.1 Lowland 14 Swarna DTY1.1 Lowland 25 Swarna DTY2.1 Lowland 19 Swarna DTY3.1 Lowland 25 Swarna DTY8.1 Lowland 16 MTU1010 DTY1.1 Lowland 17
  8. 8. DTY1.1:First consensus major QTLN I H L N M H L RM431 GY RM212825 RM315 RM11943 RM431 RM104 Prashant Vikram, Krishna Ghimire, Leni Quiatchon, IRRI
  9. 9. How real are DTY? DTY QTLs % of linesTesting QTLs in a panel of DTY1.1 6490 tolerant lines DTY2.1 49 DTY3.1 77Meta-QTL analysis DTY8.1 52 DTY12.1 85 Chr region Mean Initial MQTL MQTL MQTL PV CI (cM) (cM) (Mb) MQTL1.1 1 RG109–RM431 12 7.60 2.40 0.36 MQTL2.1 2 RM452–RM521 12 10.50 5.28 1.24 MQTL2.2 2 RM526–RM497 6 12.00 11.50 2.36 MQTL3.2 3 RM520– M16030 20 10.30 3.40 0.98 MQTL10.2 10 RM596–RM304 16 15.00 23.72 2.60 MQTL12.1 12 RM277–RM260 28 4.20 1.79 0.70 M. Swamy et al. 2011)
  10. 10. Synteny and comparative map of QTLs in rice and maize DTY1.1 region in rice – Maize 3, wheat 4B, barley 6H DTY3.1 region in rice – Maize 1 M. Swamy et al. 2011
  11. 11. Marker Assisted Breeding Protocol
  12. 12. Protocol for pyramiding major effect QTLsGeneration No. of seeds/Plants Genotyping CrossSelection of - Fore ground selection Make crosses between parents QTL1.1 – M1, M2, M3 ( DA1) plants with QTL1.1 and QTL1.2 – M4, M5, M6, M7, M8, M9 (DA2) QTL1.2F1 (Two QTLs) 50 confirm F1 Make crosses between •QTL1.1 - M1, M2, M3 ( DA1) plants having QTL1.1 and • QTL1.2 – M4, M5, M6, M7, M8, M9 (DA2) QTL1.2 with plants having •Select plants with QTL QTL 1.3F1 (Three QTLs) 100 confirm F1 Cross F1 plants with three •QTL1.1 - M1, M2, M3 ( DA1) QTLs to recipient parent •QTL1.2 – M4, M5, M6, M7, M8, M9 (DA2) (RP) •QTL1.3 - M10, M11, M12, M13, M14 (DA3) •Select plants with all the QTLs (QTL1.1, QTL1.2, QTL1.3)BC1F1 500 confirm BC1F1 Cross BC1F1 with three •QTL1.1 - M1, M2, M3 ( DA1) QTLs to RP •QTL1.2 – M4, M5, M6, M7,M8,M9 (DA2) •QTL1.3 - M10, M11, M12, M13, M14 (DA3) •Select plants with all the three QTLs •Back ground selection using 100 SSR markers uniformly distributed on all the chromosomes in selected plantsBC2F1 1000 confirm BC2F1 Self the selected plants •QTL1.1 - M1, M2, M3 ( DA1) •QTL1.2 – M4, M5, M6, M7, M8, M9 (DA2) •QTL1.3 - M10, M11, M12, M13, M14 (DA3) •Select plants with all the three QTLs •Back ground selection for segregating SSR markers in selected plantsBC2F2 2000 confirm F2 Select the plants with •QTL1.1 - M1, M2, M3 ( DA1) all the three QTLs , RP flanking and more recipient •QTL1.2 – M4, M5, M6, M7, M8, M9 (DA2) background •QTL1.3 - M10, M11, M12, M13, M14 (DA3) Advance the lines •Select plants with all the three QTLs in homozygous condition •Back ground selection for segregating SSR markers in selected plants •Check for QTL flanking markers (RA) •Select the plants with QTLs in homozygous condition, flanks with recipient
  13. 13. Improved IR64 introgression lines Line GS QTLs GY Drought GY Control (%) DS09 DS10 DS09 WS10IR 87729-69-B-B-B DTY9.1, DTY2.1, DTY10.1, DTY4.1 2006 2011 6936 4627 94.4IR 87728-102-B-B DTY9.1, DTY10.1,DTY4.1 2440 1160 6059 5462 92.9IR 87707-186-B-B-B DTY2.1, DTY10.1,DTY4.1 3200 2068 6289 6737 96.9IR 87707-446-B-B-B DTY2.1, DTY4.1 3624 2556 6005 6076 97.0IR 87707-445-B-B-B DTY2.1, DTY4.1 3639 2555 8006 5565 96.9IR 87707-118-B-B-B DTY2.1, DTY4.1 3264 2273 6096 4617 95.8IR 87705-21-13-B DTY2.1 2223 4785 6231 95.8IR 87705-6-8-B DTY4.1 2152 5399 5576 95.5IR 87728-395-B-B DTY9.1 1122 5500 5457 93.4IR 87705-36-3-B DTY10.1 2062 5052 7211 95.3IR64 567 636 4151 5811 M. Swamy, IRRI
  14. 14. Quality traits of IR64 introgression linesLINES QTLs DTF PH AC GT MP CSIR 87729-69-B-B-B DTY9.1, DTY2.1, DTY10.1, DTY4.1 86 98 20.7 I 1 1IR 87728-102-B-B DTY9.1, DTY10.1,DTY4.1 86 101 20.1 I 1 1IR 87707-186-B-B-B DTY2.1, DTY10.1,DTY4.1 82 107 21.6 I 2 1IR 87707-446-B-B-B DTY2.1, DTY4.1 81 106 22.2 I 1 1IR 87707-445-B-B-B DTY2.1, DTY4.1 83 111 22.3 I 1 1IR 87707-118-B-B-B DTY2.1, DTY4.1 83 108 20.7 I 1 1IR 87705-21-13-B DTY2.1 82 86 21 I 2 1IR 87705-6-8-B DTY4.1 80 85 21 I/L 2 1IR 87728-395-B-B DTY9.1 86 100 20.2 I 1 2IR 87705-36-3-B DTY10.1 87 84 20.3 I 1 1IR64 82 105 21.8 I/L 1 1 M. Swamy, IRRI
  15. 15. IR 64 introgression lines with DTY QTLs + QTL - QTL IR64 IR64+DTY QTLs Parents- 2007 Introgressions under drought- 2010 DTY IR 64 introgressed lineSimilar to IR64 grain quality traits of Product - 2011introgressed lines
  16. 16. Line 1 Line 2
  17. 17. + QTL IR64
  18. 18. Introgression of DTY3.1 and DTY2.1 in SwarnaIR81896-B-195 X Swarna Fore ground selection for QTLs Background selection(BC1 line with QTLs) BC2 X Swarna Fore ground selection with segregating markers Background selection for QTLs and Sub1 locus Fore ground selection for QTLs and Sub1 locus BC3 X Swarna Background selection with segregating markers Fore ground selection for QTLs and Sub1 locus BC4F 1 Background selection with segregating markers Selected plants selfed Select homozygotes for QTLs and Sub1 locus Background selection with segregating markers BC4F2 Selected BC4F3 plants will be phenotyped under drought
  19. 19. DTY3.1, DTY2.1 in Swarna, Swarna sub1 Swarna lLs (DTY +Sub1)Swarna M. Swamy, IRRI
  20. 20. DTY1.1, DTY3.1, DTY2.1 in Swarna, Swarna sub1 BC4F1 Swarna lines (three QTLs +Sub1)*2 in 1 rice for drought and submergence prone areas
  21. 21. Development of improved Vandana with DTY12.1 Grain yield (Kgha-1) % Lines Generation DTF PHT USS UMS UNS BGA IR 84984-83-15-110-B BC2F2:4 299 1514 4855 54 124 92.4 IR 84984-83-15-481-B BC2F2:4 175 1300 4196 55 120 94.1 IR 84984-83-15-862-B BC2F2:4 238 1114 4018 58 121 94.1 Vandana 72 825 3556 54 120 Way Rarem 11 212 1610 81 122B IR 90019:17-156-B BC3F2:3 522 1487 4712 61 106 98.3 IR 90019:17-159-B BC3F2:3 461 1930 5236 62 103 97.5 IR 90019:17-15-B BC3F2:3 565 2341 4534 65 107 98.3 IR 90020:22-265-B BC3F2:3 446 2090 4233 60 115 96.6 IR 90020:22-283-B BC3F2:3 415 1224 5950 58 100 94.9 Vandana 179 1049 4061 56 104 Way Rarem 0.1 500 2878 81 103 Dixit, Shalabh, IRRI
  22. 22. Differences in grain type of donor parent (Way Rarem), Recipient parent (Vandana), NIL (IR90019:17-156-B) and pre NIL (IR90019:17-15-B)
  23. 23. PartnersBangladesh Philippines – PhilRiceBRRI, Gazipur Laos – NAFRIRRS, Rajshahi Mozambique-IIAM, Chokwe Tanzania –DASRC, MorogoroIndia Malaysia – UKM and MARDIAAU, Anand RDA, KoreaBAU, RanchiBF, HyderabadCRRI, CuttackCRURRS, HazaribagDRR, HyderabadICAR-NEH, Tripura DonorsIGAU, Raipur Rockefeller FoundationJNKVV, Jabalpur Bill and Melinda Gates FoundationNDUAT, FaizabadOUAT, Bhubaneshwar Generation Challenge programTNAU, Coimbatore Asian Development BankUAS, Bangalore DevgenNepal RDA, Korea BMZ, GermanyNRRP, HardinathRARS, Nepalganj Univ. Kebangsaan Malaysia, BangiRARS, Tarharra MARDI, Malaysia
  24. 24. Everything can wait but not agriculture Thanks

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