QTL Mapping of Powdery Mildew Susceptibility in Hop (Humulus Lupulus L.)
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QTL mapping of powdery mildew susceptibility in hop (Humulus lupulus L.) John A. Henning, M. Shaun Townsend, David H. Gent, Nahla Bassil, Paul Matthews, Emily Buck & Ron Beatson Euphytica International Journal of Plant Breeding ISSN 0014-2336 Volume 180 Number 3 Euphytica (2011) 180:411-420 DOI 10.1007/ s10681-011-0403-4 1 23 Your article is protected by copyright and all rights are held exclusively by Springer Science+Business Media B.V.. This e-offprint is for personal use only and shall not be self- archived in electronic repositories. If you wish to self-archive your work, please use the accepted author’s version for posting to your own website or your institution’s repository. You may further deposit the accepted author’s version on a funder’s repository at a funder’s request, provided it is not made publicly available until 12 months after publication. 1 23 Author's personal copy Euphytica (2011) 180:411–420 DOI 10.1007/s10681-011-0403-4 QTL mapping of powdery mildew susceptibility in hop (Humulus lupulus L.) John A. Henning • M. Shaun Townsend • David H. Gent • Nahla Bassil • Paul Matthews • Emily Buck • Ron Beatson Received: 13 October 2010 / Accepted: 28 February 2011 / Published online: 15 March 2011 Ó Springer Science+Business Media B.V. (outside the USA) 2011 Abstract Hop powdery mildew [Podosphaera mac- was extracted, purified and analyzed via three ularis (Wallr.) U. Braun & S. Takam.] is best different marker systems. Analysis of the resulting controlled via the production of resistant varieties. markers was based upon the ‘‘two-way pseudo- Recent evidence supports selection against plant testcross’’ procedure. QTL mapping using multiple susceptibility genes to fungal pathogens as a more interval mapping and Bayesian interval mapping durable resistance mechanism than selection for analyses were performed using WinQTL Cartogra- resistance genes. The objective of this study was to pher 2.5_003. Comparison amongst mapping analy- identify molecular-based QTLs, their genetic effects ses identified three persistent QTLs on three linkage and epistasis among QTLs associated with suscepti- groups without significant epistatic effect upon bility to powdery mildew. Parents and offspring from expression. The persistent QTL on linkage group the cross, ‘Perle’ 9 ‘USDA 19058M’, were clonally C7 had both additive and dominant effects control- replicated and inoculated in a greenhouse using a ling phenotype expression. The presence or absence CRD experimental design in Corvallis, OR. DNA of the two AFLP markers bordering the QTL on C7 defined susceptibility in offspring. This is the first report in hop identifying molecular markers linked to J. A. Henning (&) Á D. H. Gent QTLs associated with disease susceptibility. USDA-ARS-Forage Seed Crop Research Unit, 3450 SW Campus Way, Corvallis, OR 97331, USA e-mail: [email protected] Keywords AFLP Á DArT Á Humulus lupulus Á Microsatellite Á Powdery mildew Á QTL mapping Á M. S. Townsend S-genes Department of Crop & Soil Sciences, Oregon State University, Corvallis, OR 97331, USA N. Bassil Introduction USDA-ARS-NCGR, 33447 Peoria Rd, Corvallis, OR 97333, USA A critical problem facing the U.S. hop (Humulus P. Matthews lupulus L.) industry is the need for hop varieties Hopsteiner, S. S. Steiner, 655 Madison Ave, providing superior brewing quality and possessing New York, NY 10065, USA resistance to powdery mildew. Resistance to powdery mildew [Podosphaera macularis (Wallr.) U. Braun & E. Buck Á R. Beatson Plant & Food Research, Auckland Mail Centre, S. Takam] in hop was described by Mahaffee et al. Private Bag 92169, Auckland 1142, New Zealand (2009) as having eight genetic sources of qualitative 123 Author's personal copy 412 Euphytica (2011) 180:411–420 or ‘‘gene-for-gene’’ resistance as defined by Flor performs a simultaneous search for epistasis between (1971). These R-genes were designated as R1–R7 and QTLs. This results in a more refined model than that Rb gene (blistering gene), and were identified in a obtained by any of the previously described analyses. range of eight hop genotypes. Neither the function of, Finally, Satagopan et al. (1996) reported on a nor enzymes encoded for these R-genes have been Bayesian approach, Bayesian interval mapping determined or cloned. Two R-genes, R2 and Rb, have (BIM), to identify the best combination of QTLs been associated with linked AFLP molecular markers delineating the best-fit genetic model. BIM utilizes through bulked segregate analysis followed by seg- Markov Chain Monte Carlo (MCMC) techniques to regation analysis between markers of interest and simultaneously identify multiple QTLs and the impact resistance in a mapping population (Seigner et al. of their effect. The benefit of this mapping procedure 2005; Seefelder et al. 2006). Plant resistance to is that no a priori assumptions are made concerning powdery mildew based upon the cultivars ‘Wye interactions between loci and the resulting set of Target’ (R2-gene) and ‘Buket’ (Rb gene) are impor- QTLs. tant for disease management in Germany (Seigner A few peer-reviewed studies have reported genetic et al. 2005). However, R2 and Rb-mediated resis- mapping in hop. Seefelder et al. (2000) were the first to tance appear to be easily overcome by most strains of publish hop genomic maps while attempting to identify P. macularis in the USA. Specific germplasm and linkage groups associated with expression of male varieties released by the USDA have strong resis- flowers. This group utilized a ‘‘two-way pseudo- tance to P. macularis races currently present in the testcross’’ (Grattapaglia and Sederoff 1994) to develop USA (‘Nugget’, Haunold et al. 1984;’Newport’, male and female maps. No QTL analyses or statistical Henning et al. 2004; ‘19058M’ Haunold 1988). association tests were reported but a single linkage Nonetheless, selection in the field for resistance is group reportedly ‘‘co-segregated’’ with the expression hampered by type-II errors with the result that of male flowers. Koie et al. (2005) reported a QTL multiple inoculations across environments and years mapping study on bittering resin components in hop. are necessary to accurately ascertain resistance levels. Genetic linkage maps for female line and male line Development and implementation of a marker were constructed. Twelve QTLs were detected for assisted selection scheme (MAS) using markers seven of the nine chemical components. Cerenak et al. identified by QTL mapping strategies would improve (2006, 2009a, b) reported QTL analyses for alpha acid both speed of selection as well as accuracy. levels and yield components. A single major-effect Initial studies by Beckmann and Soller (1988)as QTL was identified for alpha acid levels while QTLs well as Luo and Kearsey (1989) reported on analytical for yield components were also identified on linkage techniques to associate molecular markers with phe- group one. notypic traits. Lander and Botstein’s (1989) refined The authors are not aware of any peer-reviewed these techniques by describing ‘‘interval mapping’’ manuscripts reporting on QTL-mapping studies for (IM) whereby single QTLs are placed along a linear powdery mildew resistance or susceptibility in hop. A map of markers previously placed on individual recent review by Pavans et al. (2010) argued the linkage groups. Composite interval mapping (CIM; importance of selection against susceptibility to fungal Zeng 1993, 1994) utilizes interval mapping combined pathogens as a more durable and broad spectrum with multiple regression to restrict influences caused mechanism for resistance. The authors point out that by linked or unlinked QTLs. No consideration for some pathogen effectors act by suppressing the host epistatic effects between multiple QTLs is included in plant’s immunity by turning on effector targets whose any of these analyses. Mackay (2001) pointed out that action lie in functioning as negative regulators of plant epistatic effects are quite common between QTLs immunity. By disrupting the function of this type of associated with the expression of a specific trait. effectors’ with negative regulation, a release of the Estimation of epistatic effects in QTL mapping plant’s suppression of disease response activities is analyses along with simultaneous mapping of multi- triggered—ultimately leading to resistance as sup- ple QTLs was first reported by Kao et al. (1999). pression of disease response by the pathogen is no Multiple interval mapping (MIM; Kao et al. 1999) longer possible. Pavans et al. (2010) provides an first locates all possible QTLs, then defines and extensive list of documented cases where this 123 Author's personal copy Euphytica (2011) 180:411–420 413 observation has been studied. No evidence of such a inoculum to minimize lysis of conidia before the plant disease resistance mechanism has been docu- inoculated plants were placed in a greenhouse mented in hop. maintained at approximately 20°C with a 14 h In this study we observed segregation for resis- photoperiod. Plants of cultivar ‘Symphony’ were tance versus susceptibility to powdery mildew across included in each inoculation as positive controls to 124 offspring from the cross between the powdery verify the infectivity of the inoculum. mildew-susceptible German variety ‘Perle’ and the After 10 days of incubation (two latent periods on resistant USDA-ARS male line ‘19058M’. Plant the variety Symphony), plants were rated using a six- resistance based upon genes from 19058M has not step ordinal scale of 0–5, where 0 = no disease been overcome since powdery mildew was