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Development and evaluation of near-isogenic lines for major blast resistance gene(s) in Basmati rice

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Abstract

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A set of NILs carrying major blast resistance genes in a Basmati rice variety has been developed. Also, the efficacy of pyramids over monogenic NILs against rice blast pathogen Magnaporthe oryzae has been demonstrated.

Abstract

Productivity and quality of Basmati rice is severely affected by rice blast disease. Major genes and QTLs conferring resistance to blast have been reported only in non-Basmati rice germplasm. Here, we report incorporation of seven blast resistance genes from the donor lines DHMASQ164-2a (Pi54, Pi1, Pita), IRBLz5-CA (Pi2), IRBLb-B (Pib), IRBL5-M (Pi5) and IRBL9-W (Pi9) into the genetic background of an elite Basmati rice variety Pusa Basmati 1 (PB1). A total of 36 near-isogenic lines (NILs) comprising of 14 monogenic, 16 two-gene pyramids and six three-gene pyramids were developed through marker-assisted backcross breeding (MABB). Foreground, recombinant and background selection was used to identify the plants with target gene(s), minimize the linkage drag and increase the recurrent parent genome (RPG) recovery (93.5–98.6 %), respectively, in the NILs. Comparative analysis performed using 50,051 SNPs and 500 SSR markers revealed that the SNPs provided better insight into the RPG recovery. Most of the monogenic NILs showed comparable performance in yield and quality, concomitantly, Pusa1637-18-7-6-20 (Pi9), was significantly superior in yield and stable across four different environments as compared to recurrent parent (RP) PB1. Further, among the pyramids, Pusa1930-12-6 (Pi2+Pi5) showed significantly higher yield and Pusa1633-7-8-53-6-8 (Pi54+Pi1+Pita) was superior in cooking quality as compared to RP PB1. The NILs carrying gene Pi9 were found to be the most effective against the concoction of virulent races predominant in the hotspot locations for blast disease. Conversely, when analyzed under artificial inoculation, three-gene pyramids expressed enhanced resistance as compared to the two-gene and monogenic NILs.

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Acknowledgments

The research work was funded by National Agricultural Innovation project (NAIP), ICAR, India. The study is part of the Ph.D. research of the first author.

Conflict of interest

None of the authors have any conflict of interest associated with this study.

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Authors and Affiliations

  1. Division of Genetics, Indian Agricultural Research Institute, New Delhi, 110012, India

    Apurva Khanna, Ranjith K. Ellur, S. Gopala Krishnan, Prolay K. Bhowmick, K. V. Prabhu & Ashok K. Singh

  2. Department of Bioscience and Biotechnology, Banasthali University, Banasthali, 304022, Rajasthan, India

    Vinay Sharma

  3. Division of Genetics and Plant Breeding, SKUAST, Srinagar, 191121, Jammu and Kashmir, India

    Asif B. Shikari

  4. Division of Plant Pathology, IARI, New Delhi, 110012, India

    U. D. Singh & G. Prakash

  5. National Research Centre on Plant Biotechnology, New Delhi, 110012, India

    T. R. Sharma & N. K. Singh

  6. ACHBB, CSKHPKV, Palampur, 176062, Himachal Pradesh, India

    Rajeev Rathour

  7. Central Rainfed Upland Rice Research Station- CRRI, Hazaribagh, 825301, Jharkhand, India

    Mukund Variar

  8. Agricultural Research Station, Mugad, UAS, Dharwad, 580007, Karnataka, India

    S. K. Prashanthi

  9. Rice Breeding and Genetics Research Centre, IARI, Aduthurai, 612101, Tamil Nadu, India

    M. Nagarajan & K. K. Vinod

  10. School of Biotechnology, Banaras Hindu University, Varanasi, 221005, Uttar Pradesh, India

    B. D. Singh

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  1. Apurva Khanna
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  2. Vinay Sharma
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  18. Ashok K. Singh
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Corresponding author

Correspondence to Ashok K. Singh.

Additional information

Communicated by L. Xiong.

Electronic supplementary material

Below is the link to the electronic supplementary material.

122_2015_2502_MOESM1_ESM.doc

Foreground selection for the blast resistance genes using respective gene-linked molecular markers. Legend- M- 50 bp ladder, R- Pusa Basmati-1, D1- DHMAS70Q164-2a, D2: IRBLz5-CA, D3: IRBLb-B, D4 IRBL5-M, D5: IRBL9-W, 1-5: PB1 Nils carrying respective blast resistance genes (DOC 118 kb)

122_2015_2502_MOESM2_ESM.jpg

Scatter diagram of GGE biplot analysis depicting the mega environments and the performance of monogenic NILs across 4 locations. G1 -Pusa 1633-1-8-6-8-12, G2-Pusa 1633-1-8-6-23-7, G3-Pusa 1633-2-8-12-9-10, G4-Pusa 1633-2-8-1-4-18. G5-Pusa 1633-3-8-8-16-1, G6-Pusa 1633-3-8-20-6-12, G7-Pusa 1634-8-1-12-15, G8-Pusa 1634-4-9-6-23, G9-Pusa 1635-10-6-8-10, G10-Pusa 1635-10-5-6-18, G11-Pusa 1636-12-9-8-17, G12-Pusa 1636-12-9-12-4, G13-Pusa 1637-18-7-6-20, G14-Pusa 1637-12-8-20-5, G15- PB1(JPEG 2363 kb)

122_2015_2502_MOESM3_ESM.jpg

Gel consistency length (mm) of RP PB1, DP- DHMASQ164-2a and the NILs (1-11) carrying blast resistance genes(JPEG 2082 kb)

122_2015_2502_MOESM4_ESM.tif

Graphical representation of RPG recovery using SNP and SSR markers in Pi9 carrying NILs. In each of the chromosomes first bar represents the NIL Pusa 1637-18-7-6-20 and second bar represents the NIL Pusa 1637-12-8-20-5(TIFF 3838 kb)

Supplementary material 5 (JPEG 6303 kb)

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Khanna, A., Sharma, V., Ellur, R.K. et al. Development and evaluation of near-isogenic lines for major blast resistance gene(s) in Basmati rice. Theor Appl Genet 128, 1243–1259 (2015). https://doi.org/10.1007/s00122-015-2502-4

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  • DOI: https://doi.org/10.1007/s00122-015-2502-4

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