Mapping quantitative trait loci responsible for resistance to Bakanae disease in rice

Rice - Tập 9 - Trang 1-10 - 2016
R. Abdul Fiyaz1,2, Ashutosh K. Yadav1, S. Gopala Krishnan1, Ranjith K. Ellur1, Bishnu M. Bashyal3, Nitasha Grover1, Prolay K. Bhowmick1, M. Nagarajan4, K. K. Vinod4, Nagendra K. Singh5, Kumble V. Prabhu1, Ashok K. Singh1
1Division of Genetics, ICAR-Indian Agricultural Research Institute, New Delhi, India
2Present address: ICAR-Indian Institute of Rice Research, Hyderabad, India
3Division of Plant Pathology, ICAR-Indian Agricultural Research Institute, New Delhi, India
4Rice Breeding and Genetics Research Centre, ICAR-Indian Agricultural Research Institute, Aduthurai, India
5ICAR-National Research Centre on Plant Biotechnology, New Delhi, India

Tóm tắt

Bakanae or foot rot disease caused by Fusarium fujikuroi [teleomorph: Gibberella fujikuroi (Sawada) Ito] is emerging as a serious disease in rice. The disease causes both quantitative and qualitative losses to the grains under the field conditions. Breeding for resistance to Bakanae disease is a promising strategy to manage this emerging disease. In this study, we used a population of 168 F14 recombinant inbred lines (RILs) derived from two indica rice parents Pusa 1342, a highly resistant variety and Pusa Basmati 1121, a highly susceptible variety to map quantitative trait loci (QTLs) governing resistance against Bakanae disease. The disease reaction of 168 F14 RILs were measured on the seedlings inoculated using Fusarium fujikuroi culture using high-throughput screening protocol under glasshouse conditions. Utilizing inclusive composite interval mapping, three QTLs governing resistance to Bakanae were identified, namely qBK1.1, qBK1.2 and qBK1.3 which accounted 4.76, 24.74 and 6.49 % of phenotypic variation, respectively. The major effect QTL designated qBK1.2 was mapped in 0.26 Mb region between RM5336 and RM10153. A total of 55 annotated genes were identified within the identified QTL region qBK1.2. The novel QTLs identified in this study are useful resource for efficiently breeding rice cultivars resistant to Bakanae disease. This is the first report on identification of QTLs governing resistance against Bakanae in rice using inclusive composite interval mapping strategy in a RIL population.

Tài liệu tham khảo

Ali ML, Pathan MS, Zhang J, Bai G, Sarkarung S, Nguyen HT (2000) Mapping QTLs for root traits in a recombinant inbred population from two indica ecotype in rice. Theor Appl Genet 101:756–766 Amarawathi Y, Singh R, Singh AK, Singh VP, Mohapatra T, Sharma TR, Singh NK (2008) Mapping of quantitative trait loci for basmati quality traits in rice (Oryza sativa L.). Mol Breed 21:49–65 Bashyal BM, Aggarwal R, Banerjee S, Gupta S, Sharma S (2014) Pathogenicity, ecology and genetic diversity of the Fusarium spp. Associated with an emerging bakanae disease of rice (Oryza sativa L.) in India. In: Microbial Diversity and Biotechnology in Food Security, (In: Kharwar, et al. Eds.), New Delhi, Springer India pp 307-314 Bashyal BM, Aggarwal R, Sharma S, Gupta S, Rawat K, Singh D, Singh AK, Gopala Krishnan S (2016) Occurrence, identification and pathogenicity of Fusarium species associated with Bakanae disease of Basmati rice in India. European J Plant Pathol 144(2):457–466 Collard BCY, Jahufer MZZ, Brouwer JB, Pang ECK (2005) An introduction to markers, quantitative trait loci (QTL) mapping and marker-assisted selection for crop improvement: the basic concepts. Euphytica 142:169–196 Cumagun CJR, Arcillas E, Gergon E (2011) UP-PCR analysis of the seedborne pathogen Fusarium fujikuroi causing bakanae disease in rice. Int J Agric Biol 13:1029–1032 Ellur RK, Khanna A, Yadav A, Pathania S, Rajashekara H, Singh VK, Gopala Krishnan S, Bhowmick PK, Nagarajan M, Vinod KK, Prakash G, Mondal KK, Singh NK, Prabhu KV, Singh AK (2016) Improvement of Basmati rice varieties for resistance to blast and bacterial blight diseases using marker assisted backcross breeding. Plant Sci 242:330–341 Fiyaz RA, Gopala Krishnan S, Rajashekara H, Yadav AK, Bashyal BM, Bhowmick PK, Singh NK, Prabhu KV, Singh AK (2014) Development of high throughput screening protocol and identification of novel sources of resistance against Bakanae disease in rice (Oryza sativa L.). Indian J Genet 74(4):414–422 Fukuoka S et al (2014) Multiple functional polymorphisms in a single disease resistance gene in rice enhance durable resistance to blast. Sci Rep 4:4550. doi:10.1038/srep04550 Gomez SM, Manikanda BN, Kumar S, Ramasubramanian T, Zhu C, Jeyaprakash P, Senthil A, Chandra Babu R (2010) Molecular mapping and location of QTLs for drought-resistance traits in indica rice (Oryza sativa L.) lines adapted to target environments. Acta Physiol Plant 32:355–364 Hur Y, Lee SB, Kim TH, Kwon T, Lee J, Shin D, Park S, Hwang U, Cho JH, Yoon Y, Yeo U, Song Y, Kwak D, Nam M, Park D (2015) Mapping of qBK1, a major QTL for Bakanae disease resistance in rice. Mol Breeding 35:78. doi:10.1007/s11032-015-0281-x Iqbal M, Javed N, Sahi ST, Cheema NM (2011) Genetic management of Bakanae disease of rice and evaluation of various fungicides against Fusarium moniliforme In vitro. Pak J Phytopathol 23(2):103–107 Ito S, Kimura J (1931) Studies on the Bakanae disease of the rice plant. Rep Hokkaido Agric Exp Stn 27:1–95 Jeff O (2001) New threat: foolish seedling disease pops up in California. Rice J 104:20–21 Kawahara Y, de la Bastide M, Hamilton JP, Kanamori H, McCombie WR, Ouyang S, Schwartz DC, Tanaka T, Wu J, Zhou S, Childs KL, Davidson RM, Lin H, Quesada-Ocampo L, Vaillancourt B, Sakai H, Lee SS, Kim J, Numa H, Itoh T, Buell CR, Matsumoto T (2013) Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data. Rice 6:4 Khanna A, Sharma V, Ellur RK, Shikari AB, Gopala Krishnan S, Singh UD, Prakash G, Sharma TR, Rathour R, Variar M, Prashanthi SK, Nagarajan M, Vinod KK, Bhowmick PK, Singh NK, Prabhu KV, Singh BD, Singh AK (2015) Development and evaluation of near isogenic lines for major blast resistance gene(s) in Basmati rice. Theor Appl Genet 128(7):1243–1259 Kim MH, Hur YJ, Lee SB, Kwon TM, Hwang UH, Park SK, Yoon YN, Lee JH, Cho JH, Shin DJ, Kim TH, Han SI, Yeo US, Song YC, Nam MH, Park DS (2014) Large-scale screening analysis for the evaluation of bakanae disease in rice. J Gen Pl Path 80(5):408–414 Kosambi DD (1944) The estimation of map distances from recombination values. Ann Eugen 12:172–175 Li DJ, Luo K (1997) Study of the relationship between the occurrence of Bakanae disease in hybrid rice and the application of gibberellins to seed reproduction. J Hunan Agric Univ 23:47–49 Li H, Ye G, Wang J (2007) A modified algorithm for the improvement of composite interval mapping. Genetics 175:361–374 Ma L, Ji Z, Bao J, Zhu X, Li X, Zhuang J, Yang C, Xia Y (2008) Responses of rice genotypes carrying different dwarf genes to Fusarium moniliforme and gibberellic acid. Plant Produc Sci 11(1):134–138 McCouch SR, Kochert G, Yu ZH, Wang ZY, Khush GS (1988) Molecular mapping of rice chromosomes. Theor Appl Genet 76:815–829 McCouch SR, Cho YG, Yano M, Paul E, Blinstrub M (1997) Report on QTL nomenclature. Rice Genet Newsl 14:11–13 Meng L, Li H, Zhang L, Wang J (2015) QTL IciMapping: Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations. Crop J 3:269–283 Murray HG, Thompson WF (1980) Rapid isolation of high molecular weight DNA. Nucl Acids Res 8:4321–4325 Ou SH (1985) Rice diseases, 2nd edn. Commonwealth Mycological Institute, Kew, pp 247–256 Price AH, Tomos AD (1997) Genetic dissection of root growth in rice Mapping quantitative trait loci using molecular markers. Theor Appl Genet 95:143–152 Rood MA (2004) Bakanae in field yield loss. Rice J 15:8–10 Rosales AM, Mew TW (1997) Suppression of Fusarium moniliforme in rice by rice-associated antagonistic bacteria. Plant Dis 81:49–52 Simko I et al (2013) Identification of QTLs conferring resistance to downy mildew in legacy cultivars of lettuce. Sci Rep 3:2875. doi:10.1038/srep02875 Singh VP, Singh AK, Atwal SS, Joseph M, Mohapatra T (2002) Pusa 1121: A rice line with exceptionally high cooked kernel elongation and basmati quality. Intl Rice Res Notes 27:25–26 Singh AK, Gopala Krishana S, Singh VP, Prabhu KV, Mohapatra T, Singh NK, Sharma TR, Nagarajan M, Vinod KK, Singh D, Singh UD, Chander S, Atwal SS, Seth R, Singh VK, Ellur RK, Singh A, Anand D, Khanna A, Yadav S, Goel N, Singh A, Shikari AB, Singh A, Marathi B (2011) Marker Assisted Selection: a paradigm shift in Basmati breeding. Indian J Genet 71:1–9 Singh VK, Singh A, Singh SP, Ellur RK, Choudhary V, Sarkel S, Singh D, Gopala Krishnan S, Nagarajan M, Vinod KK, Singh UD, Rathore R, Prashanthi SK, Aggrawal PK, Bhatt JC, Mohapatra T, Prabhu KV, Singh AK (2012) Incorporation of blast resistance into “PRR78”, an elite Basmati rice restorer line, through marker assisted backcross breeding. Field Crops Res 128:8–16 Singh VK, Singh A, Singh SP, Ellur RK, Singh D, Gopala Krishnan S, Bhowmick PK, Nagarajan M, Vinod KK, Singh UD, Mohapatra T, Prabhu KV, Singh AK (2013) Marker-assisted simultaneous but stepwise backcross breeding for pyramiding blast resistance genes Piz5 and Pi54 into an elite Basmati rice restorer line ‘PRR78’. Plant Breed 132(5):489–495 Subashri M, Robin S, Vinod KK, Rajeswari S, Mohanasundaram K, Raveendran TS (2009) Trait identification and QTL validation for reproductive stage drought resistance in rice using selective genotyping of near flowering RILs. Euphytica 166:291–305 Sun SK, Snyder WC (1981) The Bakanae disease of the rice plant. In: Nelson PE, Toussoun TA, Cook RJ (eds) Fusarium: diseases, biology and taxonomy. The Pennsylvania University Press, University Park, pp 104–113 Sunder S, Satyavir S (1998) Vegetative compatibility, biosynthesis of GA3 and virulence of Fusarium moniliforme isolates from Bakanae disease of rice. Plant Pathol 47:767–772 Takahashi N, Kitamura H, Kawarada A, Seta Y, Takai M, Tamura S, Sumiki Y (1955) Biochemical studies on Bakanae fungus. Bull Agric Chem Soc Jpn 19:267–277 Thakur KSS (1974) Role of gibberllic acid, fusaric acid anc pectic enzymes in the foot rot disease of rice. Riso 23:191–207 Wang J (2009) Inclusive composite interval mapping of quantitative trait genes. Acta Agronomica Sin 35:239–245 Webster RK, Gunnell PS (1992) Compendium of rice diseases. The American Phytopathological Society Press, St. Paul Wulff ED, Sorensen JL, Lubeck M, Nlelson KF, Thrane U, Torp J (2010) Fusarium spp. associated with rice Bakanae: ecology, genetic diversity, pathogenicity and toxigenicity. Environ Microbiol 12(3):649–57 Xu Y, Zhu L, Xiao J, Huang N, McCouch S (1997) Chromosomal regions associated with segregation distortion of molecular markers in F2, backcross, doubled haploid, and recombinant inbred populations in rice (Oryza sativa L.). Mol Gen Genet 253:535–545 Yabuta T, Hayasi T (1935) Biochemistry of the Bakanae fungus of rice. Agric Hortic 10:17–22 Yadav S, Anuradha G, Kumar RR, Vemireddy LR, Sudhakar R, Donempudi K, Venkata D, Jabeen F, Narasimhan YK, Marathi B, Siddiq EA (2015) Identification of QTLs and possible candidate genes conferring sheath blight resistance in rice (Oryza sativa L.). Springer Plus 4:175 Yang HF, Wang ZY, Wu HZ, Zhu CH (2003) Study on the variation of rice Bakanae under the different methods of seedling raising. J Anhui Agric Sci 31:119–124 Yang CD, Guo LB, Li XM, Ji ZJ, Ma LY, Qian Q (2006) Analysis of QTLs for resistance to rice Bakanae disease. Chin J Rice Sci 6:657–659