Advertisement

Euphytica

, 215:179 | Cite as

Marker-assisted pyramiding of major blast resistance genes in Swarna-Sub1, an elite rice variety (Oryza sativa L.)

  • Parashuram Patroti
  • B. Vishalakshi
  • B. Umakanth
  • J. Suresh
  • P. Senguttuvel
  • M. Sheshu MadhavEmail author
Article
  • 113 Downloads

Abstract

Swarna-Sub1, a ruling submergence tolerant variety of rice, showed a significant decrease in the yield in major blast disease prone areas, which is caused by fungus Magnaporthe oryzae (Pyricularia oryzae). To overcome this problem, three major blast resistance genes viz., Pi1, Pi2, and Pi54 were pyramided through marker-assisted backcross breeding using donors, Swarna-LT (having Pi1 + Pi54) and Swarna-A51 (having Pi2). Foreground selection was carried out using molecular markers tightly linked to three blast resistance genes and also submergence tolerance for retaining the Sub1 gene in the recurrent parent. Based on disease resistance and agro-morphological performance of backcross-derived lines, we selected the best 25 plants of two- and three-gene pyramided BC3F2 homozygous lines with a maximum of ~ 93.5% recurrent parent genome and were further advanced to the BC3F5 generation. The stringent recurrent parent genome recovery analysis using SSR markers limited the linkage drag from a minimum of 0.2 Mb to a maximum of 2 Mb in all three-gene pyramided lines. The two and three blast resistance genes pyramided lines, i.e., SS30-24-82, SS30-24-73, and SS30-24-46, displayed a high level of blast resistance and submergence tolerance. The successful use of marker-assisted backcrossing strategy coupled with phenotypic selection helped in the development of Swarna-Sub1 lines having multiple blast resistance genes with superior agro-morphological and grain quality traits, which could serve as valuable genetic stocks in the rice breeding program.

Keywords

Blast resistance Background selection Foreground selection Marker-assisted selection Swarna-Sub1 

Notes

Acknowledgements

The study is part of the Ph.D. research of the first author. We thank the University Grants Commission for the financial assistance under Rajiv Gandhi National Fellowship Scheme and Indian Institute of Rice Research, Hyderabad, for providing field and laboratory facilities.

Compliance with Ethical Standards

Conflict of interest

The authors declare that there are no conflicts of interest.

Supplementary material

10681_2019_2487_MOESM1_ESM.xlsx (11 kb)
Supplementary file 1 (XLSX 10 kb)
10681_2019_2487_MOESM2_ESM.xls (34 kb)
Supplementary file 2 (XLS 32 kb)
10681_2019_2487_MOESM3_ESM.docx (357 kb)
Supplementary file 3 (DOCX 356 kb)
10681_2019_2487_MOESM4_ESM.doc (848 kb)
Supplementary file 4 (DOC 847 kb)

References

  1. Bailey-Serres J, Fukao T, Ronald P, Ismail A, Heuer S, Mackill D (2010) Submergence-tolerant rice: SUB1’s journey from landrace to modern cultivar. Rice 3:138–147.  https://doi.org/10.1007/s12284-010-9048-5 CrossRefGoogle Scholar
  2. Balachiranjeevi CH, Bhaskar NS, Kumar VA, Akanksha S, Viraktamath BC, Madhav MS, Hariprasad AS, Laha GS, Prasad MS, Balachandran SM, Neeraja CN, Kumar SM, Senguttuvel P, Kemparaju KB, Bhadana VP, Ram T, Harika G, Swamy HKM, Hajira SK, Yugander A, Pranathi K, Anila M, Rekha G, Kousik MBVN, Kumar TD, Swapnil A, Sundaram RM (2015) Marker-assisted introgression of bacterial blight and blast resistance into DRR17B, an elite, fine-grain type maintainer line of rice. Mol Breed 35:151.  https://doi.org/10.1007/s11032-015-0348-8 CrossRefGoogle Scholar
  3. Bhatia D, Sharma R, Vikal Y, Mangat GS, Mahajan R, Sharma N, Lore JS, Singh N, Bharaj TS, Singh K (2011) Marker-assisted development of bacterial blight resistant, dwarf, and high yielding versions of two traditional basmati rice cultivars. Crop Sci 51:759–770.  https://doi.org/10.2135/cropsci2010.06.0358 CrossRefGoogle Scholar
  4. Chaudhary B, Sah DN (1998) Efficacy of beam 75 WP in controlling leaf blast disease at the seedling stage of rice. Nepal Agirc Res J 2:42–47Google Scholar
  5. Deshmukh R, Singh A, Jain N, Anand S, Gacche R, Singh A, Gaikwad K, Sharma T, Mohapatra T, Singh N (2010) Identification of candidate genes for grain number in rice (Oryza sativa L.). Funct Integr Genom 10:339–347.  https://doi.org/10.1007/s10142-010-0167-2 CrossRefGoogle Scholar
  6. Efisue AA, Umunna BC, Orluchukwu JA (2014) Effects of yield components on yield potential of some low land rice (Oryza sativa L.) in coastal region of south Nigeria. J Plant Breed Crop Sci 6:119–127.  https://doi.org/10.5897/JPBCS2014.0449 CrossRefGoogle Scholar
  7. Frisch M, Bohn M, Melchinger AE (1999) Minimum sample size and optimal positioning of flanking markers in marker-assisted backcrossing for transfer of a target gene. Crop Sci 39:967–975 (erratum: Crop Sci 39:1913)CrossRefGoogle Scholar
  8. Fukuoka S, Saka N, Mizukami Y, Koga H, Yamanouchi U, Yoshioka Y, Hayashi N, Ebana K, Mizobuchi R, Yano M (2015) Gene pyramiding enhances durable blast disease resistance in rice. Sci Rep 5:7773.  https://doi.org/10.1038/srep07773 CrossRefPubMedPubMedCentralGoogle Scholar
  9. Gopalakrishnan S, Sharma RK, Rajkumar KA, Joseph M, Singh VP, Singh AK, Bhat KV, Singh NK, Mohapatra T (2008) Integrating marker-assisted background analysis with foreground selection for identification of superior bacterial blight resistant recombinants in basmati rice. Plant Breed 127:131–139.  https://doi.org/10.1111/j.1439-0523.2007.01458.x CrossRefGoogle Scholar
  10. Hari Y, Srinivasa Rao K, Viraktamath BC, Hariprasad AS, Laha GS, Ahmed M, Nataraj Kumar P, Sujatha K, Srinivasprasad MS, Rani NS, Balachandran SM, Kemparaju S, Mohan KM, Sama VSAK, Shaik H, Balachiranjeevi CH, Pranathi K, Reddy GA, Madhav MS, Sundaram RM (2013) Marker-assisted introgression of bacterial blight and blast resistance into IR 58025B, an elite maintainer line of rice. J Plant Breed 132:586–594.  https://doi.org/10.1111/pbr.12056 CrossRefGoogle Scholar
  11. Hittalmani S, Parco A, Mew T, Zeigler R, Huang N (2000) Fine mapping and DNA marker-assisted pyramiding of the three major genes for blast resistance in rice. Theor Appl Genet 100:1121–1128.  https://doi.org/10.1007/s001220051395 CrossRefGoogle Scholar
  12. Hospital F, Chevalet C, Mulsant P (1992) Using markers in gene introgression breeding programs. Genetics 132:1199–1210PubMedPubMedCentralGoogle Scholar
  13. Juliano BO, Perez CM, Blakeney AB, Castillo T, Kongseree N, Laignelet B (1981) International cooperative testing on the amylose content of milled rice. Starch 33:157–162.  https://doi.org/10.1002/star.19810330504 CrossRefGoogle Scholar
  14. Khan GH, Shikari AB, Vaishnavi R, Najeeb S, Padder BA, Bhat ZA, Parray GA, Bhat MA, Ramkumar Singh NK (2018) Marker-assisted introgression of three dominant blast resistance genes into an aromatic rice cultivar Mushk Budji. Sci Rep 8:4091.  https://doi.org/10.1038/s41598-018-22246-4 CrossRefPubMedPubMedCentralGoogle Scholar
  15. 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 128:1243–1259.  https://doi.org/10.1007/s00122-015-2502-4 CrossRefGoogle Scholar
  16. Krishnamurthy PS, Deshmukh DB, Kumar KJY, Patil S, Jakkeral S, Nemappa GH, Singh Variar M, Rathour R, Subbaiyan G, Singh AK, Sharma TR (2017) Introgression of Pi2 and Pi5 genes for blast (Magnaporthe oryzae) resistance in rice and field evaluation of introgression lines for resistance and yield traits. J Phytopathol 165:397–405.  https://doi.org/10.1111/jph.12573 CrossRefGoogle Scholar
  17. Kumar VA, Balachiranjeevi CH, Bhaskar NS, Rambabu R, Rekha G, Madhavi KR, Harika G, Vijay S, Pranathi K, Hajira SK, Srivastava A, Swamy HKM, Anila M, Yugander A, Aruna J, Hari Prasad AS, Madhav MS, Laha GS, Viraktamath BC, Balachandran SM, Senguttuvel P, Kemparaju KB, Ravindra Babu V, Sundaram Prasad MS (2016) Marker-assisted introgression of the major bacterial blight resistance gene, Xa21 and blast resistance gene, Pi54 into RPHR-1005, the restorer line of the popular rice hybrid, DRRH3. J Plant Biochem Biotechnol 25:400–409.  https://doi.org/10.1007/s13562-016-0352-z CrossRefGoogle Scholar
  18. Lewis RS, Kernodle SP (2009) A method for accelerated trait conversion in plant breeding. Theor Appl Genet 118:1499–1508.  https://doi.org/10.1007/s00122-009-0998-1 CrossRefGoogle Scholar
  19. Mackill DJ, Bonman LM (1992) Inheritance of blast resistance in near-isogenic lines of rice. Phytopathology 82:746–749CrossRefGoogle Scholar
  20. Madhavi KR, Rambabu R, Kumar AV, Kumar SV, Aruna J, Ramesh S, Sundaram RM, Laha GS, Madhav MS, Ravindrababu V, Prasad MS (2016) Marker-assisted introgression of blast (Pi-2 and Pi-54) genes in to the genetic background of elite, bacterial blight resistant indica rice variety, improved Samba Mahsuri. Euphytica 212:331.  https://doi.org/10.1007/s10681-016-1784-1 CrossRefGoogle Scholar
  21. Prasad MS, Madhav MS, Laha GS, Ladhalakshmi D, Krishnaveni D, Satendrakumar M, Balachandran SM, Sundaram RM, Arunakanthi B, Madhanmohan K, Ratnamadhavi K, Kumar V, Viraktamath BC (2011) Rice blast disease and its management. Indian Institute of Rice Research, HyderabadGoogle Scholar
  22. Ramkumar G, Srinivasarao K, Madhan Mohan K, Sudarshan I, Sivaranjani APK, Gopalakrishna K, Neeraja CN, Balachandran SM, Sundaram RM, Prasad MS, Shobha Rani N, Rama Prasad AM, Viraktamath BC, Madhav MS (2011) Development and validation of functional marker targeting an InDel in the major rice blast disease resistance gene Pi54 (Pik h). Mol Breed 27:129–135.  https://doi.org/10.1007/s11032-010-9538-6 CrossRefGoogle Scholar
  23. Ribaut J-M, Jiang C, Hoisington D (2002) Simulation experiments on efficiencies of gene introgression by backcrossing. Crop Sci 42:557–565CrossRefGoogle Scholar
  24. Scardaci SC, Webster RK, Greer CA, Hill JE, William JF, Mutters RG, Brandon DM, McKenzie KS, Oster JJ (1997) Rice blast: a new disease in California. Agronomy fact sheet series, Department of Agronomy and Range Science, University of California, Davis 1997–2Google Scholar
  25. Septiningsih EM, Pamplona AM, Sanchez DL, Neeraja CN, Vergara GV, Heuer S, Ismail AM, Mackill DJ (2009) Development of submergence-tolerant rice cultivars: the Sub1 locus and beyond. Ann Bot 103:151–160.  https://doi.org/10.1093/aob/mcn206 CrossRefPubMedPubMedCentralGoogle Scholar
  26. SES-Standard Evaluation System for Rice (1996) International Rice Research Institute, Manila, PhilippinesGoogle Scholar
  27. Sharma TR, Madhav MS, Singh BK, Shanker P, Jana TK, Dalal V, Pandit A, Singh A, Gaikwad K, Upreti HC, Singh NK (2005) High-resolution mapping, cloning and molecular characterization of the Pi-kh gene of rice, which confers resistance to M. grisea. Mol Genet Genom 274:569–578.  https://doi.org/10.1007/s00438-005-0035-2 CrossRefGoogle Scholar
  28. Sharma TR, Rai AK, Gupta GK, Singh NK (2010) Broad-spectrum blast resistance gene Pi-kh cloned from the rice line Tetep designated as Pi54. J Plant Biochem Biotechnol 19:87–89.  https://doi.org/10.1007/BF03323441 CrossRefGoogle Scholar
  29. Singh VK, Singh A, Singh SP, Ellur RK, Singh D, Krishnan SG, 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 132:486–495.  https://doi.org/10.1111/pbr.12077 CrossRefGoogle Scholar
  30. Singh AK, Singh VK, Singh A, Ellur RK, Pandian RTP, Krishnan SG, Singh UD, Nagarajan M, Vinod KK, Prabhu KV (2015) Introgression of multiple disease resistance into a maintainer of basmati rice CMS line by marker-assisted backcross breeding. Euphytica 203:97–103.  https://doi.org/10.1007/s10681-014-1267-1 CrossRefGoogle Scholar
  31. Steele KA, Price AH, Shashidhar HE, Witcombe JR (2006) Marker-assisted selection to introgress rice QTLs controlling root traits into an Indian upland rice variety. Theor Appl Genet 112:208–221.  https://doi.org/10.1007/s00122-005-0110-4 CrossRefGoogle Scholar
  32. Sundaram RM, Vishnupriya MR, Biradar SK, Laha GS, Reddy GA, ShobhaRani N, Sarma NP, Sonti RV (2008) Marker-assisted introgression of bacterial blight resistance in Samba Mahsuri, an elite indica rice variety. Euphytica 160:411–422.  https://doi.org/10.1007/s10681-007-9564-6 CrossRefGoogle Scholar
  33. Swathi G, Rani CVD, Jamaloddin Md, Madhav MS, Vanisree S, Anuradha Ch, Kumar NR, Kumar NAP, Aruna Kumari K, Ramprasad E, Sravanthi P, Raju SK, Bhuvaneswari V, Rajan CPD, Jagadeeswar R (2019) Marker-assisted introgression of the major bacterial blight resistance genes, Xa21 and xa13, and blast resistance gene, Pi54, into the popular rice variety, JGL1798. Mol Breed 39:58–65.  https://doi.org/10.1007/s11032-019-0950-2 CrossRefGoogle Scholar
  34. Tacconi G, Baldassarre V, Lanzanova C, Faivre-Rampant O, Cavigiolo S, Urso S, Lupotto E, Vale G (2010) Polymorphism analysis of genomic regions associated with broad-spectrum effective blast resistance genes for marker development in rice. Mol Breed 26:595–617.  https://doi.org/10.1007/s11032-010-9394-4 CrossRefGoogle Scholar
  35. Tanweer FA, Rafii MY, Sijam K, Rahim HA, Ahmed F, Ashkani S, Latif MA (2015) Introgression of blast resistance genes (putative Pi-b and Pi-kh) into elite rice cultivar MR219 through marker-assisted selection. Front Plant Sci 6:1–11.  https://doi.org/10.3389/fpls.2015.01002 CrossRefGoogle Scholar
  36. Usatov AV, Kostylev PI, Azarin KV, Markin NV, Makarenko MS, Khachumov VA, Bibov MY (2016) Introgression of the rice blast resistance genes Pi1, Pi2 and Pi33 into Russian rice varieties by marker-assisted selection. Indian J Genet 76:18–23.  https://doi.org/10.5958/0975-6906.2016.00003.1 CrossRefGoogle Scholar
  37. Variar M, Cruz CV, Carrillo M, Bhatt J, Sangar R (2009) Rice blast in India and strategies to develop durably resistant cultivars. In: Wang GL, Valent B (eds) Advances in genetics, genomics and control of rice blast disease. Springer, Dordrecht, pp 359–373CrossRefGoogle Scholar
  38. Visscher PM, Haley CS, Thompson R (1996) Marker-assisted introgression in back cross breeding programs. Genetics 144:1923–1932PubMedPubMedCentralGoogle Scholar
  39. Wen-Yue C, Hai-Rui C, Jin-Song B, Xiang-Sheng Z, Qing-Yao S (2006) A simplified rice DNA extraction protocol for PCR analysis. Rice Sci 13:67–70Google Scholar
  40. Zheng W, Wang Y, Wang L, Ma Z, Zhao J, Wang P, Zhang L, Liu Z, Lu X (2016) Genetic mapping and molecular marker development for Pi65(t), a novel broad-spectrum resistance gene to rice blast using next-generation sequencing. Theor Appl Genet 129:1035–1044.  https://doi.org/10.1007/s00122-016-2681-7 CrossRefPubMedPubMedCentralGoogle Scholar

Copyright information

© Springer Nature B.V. 2019

Authors and Affiliations

  • Parashuram Patroti
    • 1
  • B. Vishalakshi
    • 2
  • B. Umakanth
    • 2
  • J. Suresh
    • 3
  • P. Senguttuvel
    • 2
  • M. Sheshu Madhav
    • 2
    • 4
    Email author
  1. 1.ICAR-Indian Institute of Millets Research, Regional StationSolapurIndia
  2. 2.Division of Molecular Biology and Biotechnology, Crop Improvement SectionIndian Institute of Rice ResearchHyderabadIndia
  3. 3.Division of Genetics and Plant BreedingProfessor Jayashankar Telangana State Agricultural UniversityHyderabadIndia
  4. 4.Department of BiotechnologyICAR-Indian Institute of Rice ResearchRajendranagar, HyderabadIndia

Personalised recommendations