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ARM 2007: Dissection, characterisation and utilisation of disease QTL -- R Nelson

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ARM 2007: Dissection, characterisation and utilisation of disease QTL -- R Nelson

  1. 1. Indonesia-Bustamam -UtutIRRI-Vera Cruz-Leung-BrarCSU-LeachKARI-GethiCornell-Nelson-SmithNCSU-Balint-KurtiRiceMaizeGeneration Challenge ProgramProject #8Update 2007Dissection, characterization and utilization of disease QTL
  2. 2. Synthesis maps(Complementary) mechanismsInsight on MDRUnderstanding the traitGermplasm panel: resistance sourcesStress resistant varieties(Actionable) insightsre: breeding populationsImproving the traitdQTLdiscoverydQTLgenesDissecting the traitdQTLvs. expressiondQTLNILsPublishedNILs; HistopathologyDiversity panel; RS populationsMapping populationsDisease panelAssociation panelDiallelSelection from diallelSelection from AB- QTL populations(poster 3.25) Linkage mapping Selection mappingAB-QTL mappingMutant analysisMultiple strategies(poster 2.9) Deletion analysisQTL dissectionAssocationmappingNAMArray studies
  3. 3. GR6458GR6489GR6603GR6686GR7534GR6728GR6989Chip-analysis of loss-of-resistance mutantsJ. Leach, G. Diaz, and M. Bruce, CSUspl1LOC_Os01g27150LOC_Os03g56800LOC_Os04g54240 IR64IR64IR64GR6686GR6603GR6603GR7534GR6728GR6686 LOC_Os01g64720 GR6603GR6686GR6728GR7534IR64 LOC_Os01g67720 GR6603GR6686GR6728GR6989IR64GR7534
  4. 4. Allelic series of deletion mutants Gene model position on chromosome 12 Ratio of significant probes in probe set Mutant lineAll mutants show spl1 phenotype. Two had been confirmed as allelic by complementation tests
  5. 5. OXLP clusterOxalate oxidase(germin-like protein) R2 = 0.7039P = <0.0010.00.51.01.52.002468Rice disease rating Relative expression T0/WT Rice blast disease ratingMore More silencingsilencingCarilloand Vera Cruz, IRRIRNAi Manosalvaand Leach, CSU Increased silencing of Chr. 8 OsGLPgenes in T0 rice correlates with increased disease
  6. 6. u1228m0371Chromosome 4p072u1008b1434nc135u1669u1509b1126u2281p096b1265u2054u1142u1451u1896u2027u2038b1189u1808u2041m0321u2285u1313u1999u1101b589b18900.050100150200250300350400450500550600650700Chromosome 1Chromosome 2p96100u2246u2363b1017b1338m0111u1756u1261u2248p109642b1018m0401b1831b1036b1138u1080u2372b1329u1042b1662b1940b1520u1252p101049u1696AY1112360.050100150200250300350400450500550600650700Chromosome 3u2118u2256p104127u1886b1325b1523u1057u2258u2369p099u2000u2158b2047u2261u2264u1773b1456b1904u1920u2376u1266b1449b1047u2266u2269 u2270u2271dupssr17b1605u1825m0251b1108u1273u2276dupssr33b1182b1496u1062u1594u11360.050100150200250300350400450500550600650700750800Chromosome 5u1308u1496u1781b105b1046u1447u1355b1287b1208m0081u1853u1722p101u2216p048b2305b118AY105910u23070.050100150200250300350400450500550600650Chromosome 10p041u1293u1291u1152u2034u1337p059u1863u1866p050u1995b1526u1077u1115u1506b1028u1084b1360b1185501001502002503003504004500.0b1065Chromosome 8u1414b1194u1913b1834b1863u1457b1176b666b1782b1031dupssr14b1056b11310.050100150200250300350400450500550600Chromosome 6b1043b426b1371u1083u1572AY111964m0241b1732u1859p299852b1740b1521b1538nc009u23240.050100150200250300350400450500Chromosome 7b1367b2132u1159b1094u1983b1022b1808b1305b1070b1805b1666b2259b1407p0510.050100150200250300350400450500550600Chromosome 98000.050100150200250300350400450500550-39.0700750600650u1279b1724u1867u2393b1810b1583u2335u1596u1430b244p061u1107u2398u1120u1078u1231u2095u2343u2371b1191u1366b619b128 u1982u1277NC250 Introgression likely derived from B37NC250 Introgression likely derived from Nigerian Composite ARbNC250 Introgression in both NC292 and NC330NC250 Introgression in NC292NC250 Introgression in NC330Unknown no SSR dataUnknown bands present in NC292 and NC330 not present in B73 or NC250Unknown bands present NC330 not present in B73 or NC250, NC292 has B73 bandMajor SLB QTL positions B73/NC250A F2:3populationumc1704umc1532umc2011bnlg1917u1636dupssr19b2228u1177b1490.050a31b1429u1160b1484b1866b652u2227b2086u1297u1988u1254u1035u1122u1661u1358b1556b1025u1128p037u1848m0041u2047u1298u1431b1671b1347u1500p265454u1553u1129u1118b2123u1725u2244100150200250300350400450500550600650700750800850900950100010501100u2053u1576b594IDP1471IDP4016500BBCCGGFFEEDDIIJJHHAAIntrogression CIntrogression FIntrogression GIntrogression JB73NC292Introgression BIntrogression DZwonitzer and Balint-Kurti
  7. 7. Increase in rate of lesion development0.070.0750.080.0850.090.095B73HetSEL* Incubation Period -1Antagonistic reactions for NLB and rust resistance0102030405060B73HetSEL* DLADecrease in rust severity R SRSSelected alleleNLBp < 0.001Rustp = 0.01 J.A. Poland and R.J. Nelson, Cornell
  8. 8. Chung and NelsonIncidence of E. turcicum growing into thexylem on different maize genotypes(7 days after inoculation) 020406080100CML52Tx303B73TBBC3_42Maize genotype % of infection sites hyphae in the xylem
  9. 9. 0102030405060708090100110 IFKi3M162W20602511CML69201CML322B7312817378171219127119Ky21484281M37W26CML322-Inoc192194185137Tx3037990615466501661968CML322-MockOh7B Line Infection Frequency (%) Maize + drought = aflatoxicosis Miderosand Nelson, CornellResistance to infection by Aspergillusflavus
  10. 10. Chr 2Chr 3Chr 5Chr 7Panicle weightLeaf blastLesion number Diseased leaf area Harvest indexHeightGrain fillingMapping of QTLsfor resistance to blast and drought tolerance in rice Vandana/ Moroberekanderivatives; IRRI & IndiaDatasets and lines: Advanced rice genotypes with drought and blast resistanceMoroberekan/ Vandana(India-IRRI) Oryzicallanos 5 / Way Rarem(Indonesia / IRRI)
  11. 11. Genetics + breeding Parent 1&2 CML 312 CML 384 TZMi 102 TZMi 711 TZMi 712 CML 204 CML 373 CML 312 Self CML 384 Self TZMi 102 Self TZMi 711 Self TZMi 712 Self CML 204 Self CML 373 SelfModerate x ModerateCML 312 x TZMi 712 •Diallelstudy of GLS resistance •F2:3and BC4F4lines pending •Promising hybrids identified
  12. 12. Gene(s) QDR-QTLQTL Dissection NILsNested Association MappingAssociationmapping RIL populations Selection mapping Targeted HIF extraction Introgression librariesDeletion mutantsVarietiesAffymetrixdata on deletion mutants5 SLB datasets4 GLS datasets 3 NLB datasets2 SLB datasets2 NLB datasets2 smut datasets(collabwith Buckler / Holland) Materials, marker data and phenodata

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