Molecular tracking of multiple disease resistance in a winter wheat diversity panel
Tóm tắt
About 10% of cultivars possessed superior resistance to four fungal diseases and association mapping for multiple disease resistance identified loci which are not detected by analyzing individual disease resistances. Multiple disease resistance (MDR) aims for cultivars that are resistant to more than one disease which is an important prerequisite for the registration of commercial cultivars. We analyzed a European winter wheat diversity panel of 158 old and new cultivars for four diseases by natural (powdery mildew) and artificial inoculation (yellow rust, stem rust, Fusarium head blight) observed on the same plot in a multilocation trial. Genotypic analyses were based on 21,543 genotype-by-sequencing markers. By association mapping, eight to 18 quantitative-trait loci (QTL) were detected for individual disease resistances, explaining in total 67–90% of the total genotypic variation. For MDR, nine QTL could be found explaining 62% of the total genotypic variation. Only three of them were also found as QTL for a single disease resistance illustrating that mapping of MDR-associated QTL can be regarded as a complementary approach. The high prediction ability obtained for MDR (> 0.9) implies that genomic prediction could be used in future, thereby eliminating the necessity to separately screen large numbers of lines in breeding programs for several diseases.
Tài liệu tham khảo
Appels R, Eversole K, Feuillet C, Keller B, Rogers J, Stein N et al (2018) Shifting the limits in wheat research and breeding using a fully annotated reference genome. Science 361(6403):eaar7191.
https://doi.org/10.1126/science.aar7191
citation_journal_title=Bioinformatics; citation_title=GenABEL: an R library for genome-wide association analysis; citation_author=YS Aulchenko, S Ripke, A Isaacs, CM Duijn; citation_volume=23; citation_publication_date=2007; citation_pages=1294-1296; citation_doi=10.1093/bioinformatics/btm108; citation_id=CR2
citation_title=Biology, diversity, and management of FHB-causing species in small-grain cereals; citation_inbook_title=Agricultural Applications. The Mycota XI; citation_publication_date=2013; citation_pages=199-241; citation_id=CR3; citation_author=R Becher; citation_author=T Miedaner; citation_author=SGR Wirsel; citation_publisher=Springer
citation_journal_title=Euphytica; citation_title=Prediction of hybrid performance for Fusarium head blight resistance in triticale (× Triticosecale Wittmack); citation_author=PHG Boeven, T Würschum, S Weissmann, T Miedaner, HP Maurer; citation_volume=207; citation_publication_date=2016; citation_pages=475-490; citation_doi=10.1007/s10681-015-1498-9; citation_id=CR4
BSL (2018) Descriptive variety list. Cereal, maize, large grained pulse crops, root crops (except potato, in German). Hannover: Bundessortenamt.
https://www.bundessortenamt.de/internet30/fileadmin/Files/PDF/bsl_getreide_2018.pdf
. Accessed 25 Jan 2019
citation_journal_title=Theor Appl Genet; citation_title=Molecular mapping of QTLs for Fusarium head blight resistance in spring wheat. I. Resistance to fungal spread (Type II resistance); citation_author=H Buerstmayr, M Lemmens, L Hartl, L Doldi, B Steiner, M Stierschneider, P Ruckenbauer; citation_volume=104; citation_publication_date=2002; citation_pages=84-91; citation_doi=10.1007/s001220200009; citation_id=CR6
citation_journal_title=Theor Appl Genet; citation_title=Mapping of quantitative adult plant field resistance to leaf rust and stripe rust in two European winter wheat populations reveals co-location of three QTL conferring resistance to both rust pathogens; citation_author=M Buerstmayr, L Matiasch, F Mascher; citation_volume=127; citation_publication_date=2014; citation_pages=2011-2028; citation_doi=10.1007/s00122-014-2357-0; citation_id=CR7
citation_title=Advances in control of wheat diseases: Fusarium head blight, wheat blast and powdery mildew; citation_inbook_title=Achieving sustainable cultivation of wheat—vol 1: breeding, quality traits, pests and diseases; citation_publication_date=2017; citation_id=CR8; citation_author=H Buerstmayr; citation_author=V Mohler; citation_author=M Kohli; citation_publisher=Burleigh Dodds Sci Publ
citation_journal_title=G3 Genes Genomes Genet; citation_title=Genetic architecture of resistance to stripe rust in a global winter wheat germplasm collection; citation_author=P Bulli, J Zhang, S Chao, X Chen, M Pumphrey; citation_volume=6; citation_publication_date=2016; citation_pages=2237-2253; citation_id=CR9
citation_journal_title=Theor Appl Genet; citation_title=Fine mapping and characterization of Sr21, a temperature-sensitive diploid wheat resistance gene effective against the Puccinia graminis f. sp. tritici Ug99 race group; citation_author=S Chen, MN Rouse, W Zhang, Y Jin, E Akhunov, Y Wei, J Dubcovsky; citation_volume=128; citation_publication_date=2015; citation_pages=645-656; citation_doi=10.1007/s00122-015-2460-x; citation_id=CR10
citation_journal_title=J Agric Biol Environ Stat; citation_title=On the design of early generation variety trials with correlated data; citation_author=BR Cullis, AB Smith, NE Coombes; citation_volume=11; citation_publication_date=2006; citation_pages=381-393; citation_doi=10.1198/108571106X154443; citation_id=CR12
citation_journal_title=Theor Appl Genet; citation_title=Identification of QTLs for resistance to Fusarium head blight, DON accumulation and associated traits in the winter wheat variety Arina; citation_author=R Draeger, N Gosman, A Steed; citation_volume=115; citation_publication_date=2007; citation_pages=617-625; citation_doi=10.1007/s00122-007-0592-3; citation_id=CR13
citation_journal_title=Plant Genome; citation_title=Ridge regression and other kernels for genomic selection with R package rrBLUP; citation_author=JB Endelman; citation_volume=4; citation_publication_date=2011; citation_pages=250-255; citation_doi=10.3835/plantgenome2011.08.0024; citation_id=CR14
citation_journal_title=G3 Genes Genomes Genet; citation_title=Shrinkage estimation of the realized relationship matrix; citation_author=JB Endelman, JL Jannink; citation_volume=2; citation_publication_date=2012; citation_pages=1405-1413; citation_doi=10.1534/g3.112.004259; citation_id=CR15
citation_journal_title=Plant Breed; citation_title=Genes for wheat stem rust postulated in German cultivars in seedling stage and their resistance in adult-plant field tests; citation_author=K Flath, T Miedaner, PD Olivera, MN Rouse, Y Jin; citation_volume=137; citation_publication_date=2018; citation_pages=301-312; citation_doi=10.1111/pbr.12591; citation_id=CR16
citation_journal_title=Theor Appl Genet; citation_title=A major QTL for resistance against Fusarium head blight in European winter wheat; citation_author=J Häberle, J Holzapfel, G Schweizer, L Hartl; citation_volume=119; citation_publication_date=2009; citation_pages=325-332; citation_doi=10.1007/s00122-009-1041-2; citation_id=CR17
Holzapfel J, Mohler V, Häberle J, Schweizer G, Miedaner T, Voss H-H, Korzun V, Hartl L (2008) Genome distribution of QTL for Fusarium head blight resistance in European wheat germplasm. In: The 11th international wheat genetics symposium proceedings in Brisbane, QLD, Australia, 24–29 August, pp 789–791
citation_title=Genetics and analysis of quantitative traits; citation_publication_date=1998; citation_id=CR19; citation_author=M Lynch; citation_author=B Walsh; citation_publisher=Sinauer Associates
citation_journal_title=Ann Rev Phytopathol; citation_title=Pathogen population genetics, evolutionary potential, and durable resistance; citation_author=BA McDonald, C Linde; citation_volume=40; citation_publication_date=2002; citation_pages=349-379; citation_doi=10.1146/annurev.phyto.40.120501.101443; citation_id=CR20
McIntosh RA, Yamazaki Y, Dubcovsky J et al (2013) Catalogue of gene symbols for wheat. In: Ogihara Y (ed) Proceeding of the 12th international wheat genetics symposium, Yokohama, Japan, 8–13 Sept 2013, pp 8–13
citation_journal_title=Annu Wheat Newsl; citation_title=Catalogue of gene symbols for wheat: 2017 Supplement; citation_author=RA McIntosh, J Dubcovsky, WJ Rogers, C Morris, XC Xia; citation_volume=53; citation_publication_date=2017; citation_pages=1-20; citation_id=CR22
Meier U (2001) Growth stages of mono- and dicotyledonous plants. BBCH Monograph. Internet:
https://www.julius-kuehn.de/media/Veroeffentlichungen/bbch%20epaper%20en/page.pdf
. Accessed 25. Jan 2019
citation_journal_title=Genetics; citation_title=Prediction of total genetic value using genome-wide dense marker maps; citation_author=THE Meuwissen, BJ Hayes, ME Goddard; citation_volume=157; citation_publication_date=2001; citation_pages=1819-1829; citation_id=CR24
citation_journal_title=Theor Appl Genet; citation_title=Improving the baking quality of bread wheat by genomic selection in early generations; citation_author=S Michel, C Kummer, M Gallee, J Hellinger, C Ametz, B Akgöl, D Epure, F Löschenberger, H Buerstmayr; citation_volume=131; citation_publication_date=2018; citation_pages=477-493; citation_doi=10.1007/s00122-017-2998-x; citation_id=CR25
Miedaner T (2016) Chapter 15. Breeding strategies for improving plant resistance to diseases. In: Al-Khayri JM, Jain SM, Johnson DV (eds) Advances in plant breeding strategies: agronomy, abiotic and biotic stress traits. Springer International Publishing, Berlin, pp 561–599.
https://doi.org/10.1007/978-3-319-22518-0
citation_journal_title=Plant Breed; citation_title=Effectiveness and environmental stability of quantitative powdery mildew (Blumeria graminis) resistance among winter wheat cultivars; citation_author=T Miedaner, K Flath; citation_volume=126; citation_publication_date=2007; citation_pages=553-558; citation_doi=10.1111/j.1439-0523.2006.01353.x; citation_id=CR27
citation_journal_title=Phytopathology; citation_title=Marker-assisted selection for disease resistance in wheat and barley breeding; citation_author=T Miedaner, V Korzun; citation_volume=102; citation_publication_date=2012; citation_pages=560-566; citation_doi=10.1094/PHYTO-05-11-0157; citation_id=CR28
citation_journal_title=Plant Dis; citation_title=Quantitative-genetic basis of aggressiveness of 42 isolates of Fusarium culmorum for winter rye head blight; citation_author=T Miedaner, G Gang, HH Geiger; citation_volume=80; citation_publication_date=1996; citation_pages=500-504; citation_doi=10.1094/PD-80-0500; citation_id=CR29
citation_journal_title=Mol Breed; citation_title=Broad-spectrum resistance loci for three quantitatively inherited diseases in two winter wheat populations; citation_author=T Miedaner, P Risser, S Paillard; citation_volume=29; citation_publication_date=2012; citation_pages=731-742; citation_doi=10.1007/s11032-011-9586-6; citation_id=CR30
citation_journal_title=Plant Breed; citation_title=Combined inoculation of wheat pathogens Zymoseptoria tritici and Fusarium culmorum as a tool for increasing selection intensity in resistance breeding; citation_author=T Miedaner, B Lieberherr, S Koch, M Scholz, E Ebmeyer; citation_volume=133; citation_publication_date=2014; citation_pages=543-547; citation_doi=10.1111/pbr.12191; citation_id=CR31
citation_journal_title=Eur J Plant Pathol; citation_title=A multiple disease test for field-based phenotyping of resistances to Fusarium head blight, yellow rust and stem rust in wheat; citation_author=T Miedaner, JE Schmid, K Flath, S Koch, A Jacobi, E Ebmeyer, M Taylor; citation_volume=151; citation_publication_date=2018; citation_pages=451-461; citation_doi=10.1007/s10658-017-1386-3; citation_id=CR32
citation_journal_title=G3 Genes Genomes Genet; citation_title=LinkImpute: fast and accurate genotype imputation for non-model organisms; citation_author=D Money, K Gardner, Z Migicovsky, H Schwaninger, GY Zhong, S Myles; citation_volume=5; citation_publication_date=2015; citation_pages=2383-2390; citation_id=CR33
citation_journal_title=Plant Cell; citation_title=Association mapping: critical considerations shift from genotyping to experimental design; citation_author=S Myles, J Peiffer, PJ Brown, ES Ersoz, Z Zhang; citation_volume=21; citation_publication_date=2009; citation_pages=2194-2202; citation_doi=10.1105/tpc.109.068437; citation_id=CR34
citation_journal_title=Plant Pathol; citation_title=Characterization of Puccinia graminis f. sp. tritici isolates derived from an unusual wheat stem rust outbreak in Germany in 2013; citation_author=PD Olivera Firpo, M Newcomb, K Flath, N Sommerfeldt-Impe, LJ Szabo, M Carter, DG Luster, Y Jin; citation_volume=66; citation_publication_date=2017; citation_pages=1258-1266; citation_doi=10.1111/ppa.12674; citation_id=CR35
citation_journal_title=Eur J Plant Pathol; citation_title=Identification of new sources of resistance to fungal leaf and head blight diseases of wheat; citation_author=M Osman, X He, S Benedettelli, A Shaukat, PK Sing; citation_volume=145; citation_publication_date=2016; citation_pages=305-320; citation_doi=10.1007/s10658-015-0843-0; citation_id=CR36
Paterson J (2014) Multiple disease resistance the holy grail.
https://grdc.com.au/resources-and-publications/groundcover/ground-cover-supplements/gcs110/multiple-disease-resistance-the-holy-grail
. Accessed 25 Jan 2019
citation_journal_title=Euphytica; citation_title=Evaluation of seedling and adult plant resistance to stem rust in European wheat cultivars; citation_author=AK Pathan, RF Park; citation_volume=155; citation_publication_date=2007; citation_pages=87-105; citation_doi=10.1007/s10681-006-9308-z; citation_id=CR38
citation_journal_title=Science; citation_title=A physical map of the 1-gigabase bread wheat chromosome 3B; citation_author=E Paux, P Sourdille, J Salse; citation_volume=32; citation_issue=2; citation_publication_date=2008; citation_pages=101-104; citation_doi=10.1126/science.1161847; citation_id=CR39
citation_journal_title=Genetics; citation_title=Computing heritability and selection response from unbalanced plant breeding trials; citation_author=H-P Piepho, J Möhring; citation_volume=177; citation_publication_date=2007; citation_pages=1881-1888; citation_doi=10.1534/genetics.107.074229; citation_id=CR40
citation_journal_title=Annu Rev Phytopathol; citation_title=Advances and challenges in genomic selection for disease resistance; citation_author=J Poland, J Rutkoski; citation_volume=54; citation_publication_date=2016; citation_pages=79-98; citation_doi=10.1146/annurev-phyto-080615-100056; citation_id=CR41
citation_journal_title=J Appl Genet; citation_title=Postulation of rust resistance genes in Nordic spring wheat genotypes and identification of widely effective sources of resistance against the Australian rust flora; citation_author=M Randhawa, U Bansal, M Lillemo, H Miah, H Bariana; citation_volume=57; citation_publication_date=2016; citation_pages=453-465; citation_doi=10.1007/s13353-016-0345-6; citation_id=CR42
citation_title=Wheat diseases: an overview; citation_inbook_title=Achieving sustainable cultivation of wheat—vol 1: breeding, quality traits, pests and diseases; citation_publication_date=2017; citation_id=CR43; citation_author=A Serfling; citation_author=D Kopahnke; citation_author=A Habekuss; citation_author=F Novakazi; citation_author=F Ordon; citation_publisher=Burleigh Dodds Sci Publ
citation_journal_title=J Plant Pathol; citation_title=Characterisation of stem rust and stripe rust seedling resistance genes in selected wheat cultivars from the United Kingdom; citation_author=D Singh, RF Park, RA McIntosh, HS Bariana; citation_volume=90; citation_publication_date=2008; citation_pages=553-562; citation_id=CR44
citation_journal_title=Euphytica; citation_title=Race non-specific resistance to rust diseases in CIMMYT spring wheats; citation_author=RP Singh, J Huerta-Espino, S Bhavani; citation_volume=179; citation_publication_date=2011; citation_pages=175-186; citation_doi=10.1007/s10681-010-0322-9; citation_id=CR45
Singh A, Singh VK, Singh SP et al (2012) Molecular breeding for the development of multiple disease resistance in Basmati rice. AoB Plants 2012:pls029.
https://doi.org/10.1093/aobpla/pls029
citation_title=Statistical methods; citation_publication_date=1989; citation_id=CR47; citation_author=GW Snedecor; citation_author=WG Cochran; citation_publisher=Iowa State Univ Press
citation_journal_title=Phytopathology; citation_title=Effects of head blight caused by Fusarium culmorum on toxin content and weight of wheat kernels; citation_author=CHA Snijders, J Perkowski; citation_volume=80; citation_publication_date=1990; citation_pages=566-570; citation_doi=10.1094/Phyto-80-566; citation_id=CR48
Soto-Cerda BJ, Cloutier S (2012) Association mapping in plant genomes. In: Caliskan M (ed) Genetic diversity in plants. InTech Rijeka, Croatia.
https://www.intechopen.com/books/genetic-diversity-in-plants/association-mapping-in-plant-genomes
. Accessed 25 Jan 2019
citation_journal_title=Heredity; citation_title=Genome-wide prediction models that incorporate de novo GWAS are a powerful new tool for tropical rice improvement; citation_author=JE Spindel, H Begum, D Akdemir, B Collard, E Redoña, JL Jannink, S McCouch; citation_volume=116; citation_publication_date=2016; citation_pages=395-408; citation_doi=10.1038/hdy.2015.113; citation_id=CR50
citation_journal_title=Trop Plant Pathol; citation_title=Breeding strategies and advances in line selection for Fusarium head blight resistance in wheat; citation_author=B Steiner, M Buerstmayr, S Michel, W Schweiger, M Lemmens, H Buerstmayr; citation_volume=42; citation_publication_date=2017; citation_pages=165-174; citation_doi=10.1007/s40858-017-0127-7; citation_id=CR51
citation_journal_title=BMC Res Notes; citation_title=Determining the order of resistance genes against Stagonospora nodorum blotch, Fusarium head blight and stem rust on wheat chromosome arm 3BS; citation_author=R Thapa, G Brown-Guedira, HW Ohm, M Mateos-Hernandez, KA Wise, SB Goodwin; citation_volume=9; citation_publication_date=2016; citation_pages=58; citation_doi=10.1186/s13104-016-1859-z; citation_id=CR52
citation_journal_title=Genetics; citation_title=Bias and sampling error of the estimated proportion of genotypic variance explained by quantitative trait loci determined from experimental data in maize using cross validation and validation with independent samples; citation_author=HF Utz, AE Melchinger, CC Schön; citation_volume=154; citation_publication_date=2000; citation_pages=1839-1849; citation_id=CR53
citation_journal_title=Phytopathology; citation_title=Variation and transgression of aggressiveness among two Gibberella zeae crosses developed from highly aggressive parental isolates; citation_author=H-H Voss, RL Bowden, JF Leslie, T Miedaner; citation_volume=100; citation_publication_date=2010; citation_pages=904-912; citation_doi=10.1094/PHYTO-100-9-0904; citation_id=CR54
citation_journal_title=Genet Res; citation_title=Marker-assisted selection using ridge regression; citation_author=JC Whittaker, R Thompson, MC Denham; citation_volume=75; citation_publication_date=2000; citation_pages=249-252; citation_doi=10.1017/S0016672399004462; citation_id=CR55
citation_journal_title=Annu Rev Phytopathol; citation_title=Multiple disease resistance in plants; citation_author=T Wiesner-Hanks, R Nelson; citation_volume=54; citation_publication_date=2016; citation_pages=229-252; citation_doi=10.1146/annurev-phyto-080615-100037; citation_id=CR56
citation_journal_title=Biom J; citation_title=Augmented p-rep designs; citation_author=E Williams, HP Piepho, D Whitaker; citation_volume=53; citation_publication_date=2011; citation_pages=19-27; citation_doi=10.1002/bimj.201000102; citation_id=CR57
citation_journal_title=Phytopathology; citation_title=The genetic architecture of disease resistance in maize: a synthesis of published studies; citation_author=RJ Wisser, PJ Balint-Kurti, RJ Nelson; citation_volume=96; citation_publication_date=2006; citation_pages=120-129; citation_doi=10.1094/PHYTO-96-0120; citation_id=CR58
citation_journal_title=Heredity; citation_title=Comparison of biometrical models for joint linkage association mapping; citation_author=T Würschum, W Liu, M Gowda, HP Maurer, S Fischer, A Schechert, JC Reif; citation_volume=108; citation_publication_date=2012; citation_pages=332-340; citation_doi=10.1038/hdy.2011.78; citation_id=CR59
citation_journal_title=BMC Genet; citation_title=Genomic selection in sugar beet breeding populations; citation_author=T Würschum, JC Reif, Janssen G KraftT, Y Zhao; citation_volume=14; citation_publication_date=2013; citation_pages=85; citation_doi=10.1186/1471-2156-14-85; citation_id=CR60
citation_journal_title=Plant Breed; citation_title=Potential of genomic selection in rapeseed (B. rassica napus L.) breeding; citation_author=T Würschum, S Abel, Y Zhao; citation_volume=133; citation_publication_date=2014; citation_pages=45-51; citation_doi=10.1111/pbr.12137; citation_id=CR61
citation_journal_title=Front Plant Sci; citation_title=Genetic analysis of Fusarium head blight resistance in CIMMYT bread wheat line C615 using traditional and conditional QTL mapping; citation_author=X Yi, J Cheng, Z Jiang, W Hu, T Bie, D Gao, D Li, R Wu, Y Li, S Chen, X Cheng, J Liu, Y Zhang, S Cheng; citation_volume=9; citation_publication_date=2018; citation_pages=573; citation_doi=10.3389/fpls.2018.00573; citation_id=CR62
citation_journal_title=Nat Genet; citation_title=A unified mixed-model method for association mapping that accounts for multiple levels of relatedness; citation_author=J Yu, G Pressoir, WH Briggs; citation_volume=38; citation_publication_date=2006; citation_pages=203-208; citation_doi=10.1038/ng1702; citation_id=CR63
citation_journal_title=Theor Appl Genet; citation_title=A consensus map for Ug99 stem rust resistance loci in wheat; citation_author=LX Yu, H Barbier, MN Rouse, S Singh, RP Singh, S Bhavani, J Huerta-Espino, ME Sorrells; citation_volume=127; citation_publication_date=2014; citation_pages=1561-1581; citation_doi=10.1007/s00122-014-2326-7; citation_id=CR64
citation_journal_title=Genome; citation_title=Molecular characterization of Fusarium head blight resistance in Wangshuibai with simple sequence repeat and amplified fragment length polymorphism markers; citation_author=W Zhou, FL Kolb, J Yu, G Bai, LK Boze, LL Domier; citation_volume=47; citation_publication_date=2004; citation_pages=1137-1143; citation_doi=10.1139/g04-069; citation_id=CR66