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Theoretical and Applied Genetics

, Volume 131, Issue 5, pp 1163–1171 | Cite as

High-resolution genetic mapping of a novel brown planthopper resistance locus, Bph34 in Oryza sativa L. X Oryza nivara (Sharma & Shastry) derived interspecific F2 population

  • Kishor Kumar
  • Preetinder Singh Sarao
  • Dharminder Bhatia
  • Kumari Neelam
  • Amanpreet Kaur
  • Gurjeet Singh Mangat
  • Darshan Singh Brar
  • Kuldeep Singh
Original Article

Abstract

Key message

A BPH-resistant locus designated as Bph34 identified in Oryza nivara acc. IRGC104646 on long arm of chromosome 4 using high-resolution mapping with 50 K SNP chip. BPH resistance contributed by locus showed dominant inheritance in F2 and F3. The Bph34 locus is 91 kb in size and contains 11 candidate genes. In addition to SNP markers, SSR markers, RM16994 and RM17007 co-segregated with the BPH resistance. These two SSR markers can facilitate marker-assisted transfer of the Bph34 locus into elite rice cultivars in all labs.

Abstract

Brown planthopper (BPH, Nilaparvata lugen Stål) is one of the most destructive insects of rice (Oryza sativa L.) causing significant yield losses annually. Exploiting host plant resistance to BPH and incorporating resistant genes in susceptible commercial cultivars is economical and environmentally friendly approach to manage this pest. Here, we report high-resolution mapping of a novel genetic locus for resistance to BPH, designated as Bph34 on long arm of rice chromosome 4. The locus was mapped using an interspecific F2 population derived from a cross between susceptible indica cultivar PR122 and BPH-resistant wild species, O. nivara acc. IRGC104646. Inheritance studies performed using F2 and F2:3 populations revealed the presence of single dominant gene. Construction of high-density linkage map using 50 K SNP chip (OsSNPnks) followed by QTL mapping identified single major locus at 28.8 LOD score between SNP markers, AX-95952039 and AX-95921548. The major locus contributing resistance to BPH designated as Bph34 and explained 68.3% of total phenotypic variance. The Bph34 locus is 91 Kb in size on Nipponbare reference genome-IRGSP-1.0 and contains 11 candidate genes. In addition to associated SNP markers, two SSR markers, RM16994 and RM17007, also co-segregated with the Bph34 which can be used efficiently for markers assisted transfer into elite rice cultivars across the labs.

Notes

Acknowledgements

Financial grant from Indian Council of Agricultural Research (ICAR), New Delhi under project “Niche Area of Excellence in Wheat and Rice, PC 2198” is highly acknowledged.

Compliance with ethical standards

Conflict of interest

Authors declare no conflict of interest.

Supplementary material

122_2018_3069_MOESM1_ESM.pdf (116 kb)
Fig. S1 High-density SNP-based linkage map generated using Affymetrix Axiom 50 K SNP chip based genotyping of interspecific F2 population derived from O. sativa cv. PR122 and O. nivara acc. IRGC104646 showing; (a) chromosome 1-6 (b) chromosome 7-12 (PDF 115 kb)
122_2018_3069_MOESM2_ESM.pdf (68 kb)
Supplementary material 2 (PDF 68 kb)
122_2018_3069_MOESM3_ESM.tif (179 kb)
Fig. S2 PCR amplification with Bph34 linked SSR markers showing differences in alleles in 1 = PR122, 2 = O. nivara acc. IRGC104646, 3 = Swarnlata, 4 = Balamawee on 2.5% agarose gel, L indicates the marker lane. (TIFF 178 kb)
122_2018_3069_MOESM4_ESM.tif (495 kb)
Fig. S3 Selected F2 recombinants and parental lines, PR122 and O. nivara acc. IRGC104646 indicating recombination events in the Bph34 region along with their mean BPH resistance scores, where A-allele homozygous for PR122; B-allele homozygous for O. nivara acc. IRGC104646 and H- heterozygotes (TIFF 495 kb)
122_2018_3069_MOESM5_ESM.tif (215 kb)
Fig. S4 Agarose gel showing amplification of linked SSR marker RM17014 in F3: BC1F1 plants, parental bands corresponding to PR122 and O. nivara acc. IRGC104646 are marked (TIFF 215 kb)
122_2018_3069_MOESM6_ESM.docx (19 kb)
Supplementary material 6 (DOCX 20 kb)

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Copyright information

© Springer-Verlag GmbH Germany, part of Springer Nature 2018

Authors and Affiliations

  1. 1.School of Agricultural BiotechnologyPunjab Agricultural UniversityLudhianaIndia
  2. 2.Department of Plant Breeding and GeneticsPunjab Agricultural UniversityLudhianaIndia
  3. 3.ICAR-National Bureau of Plant Genetic ResourcesNew DelhiIndia

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