Skip to main content

Advertisement

SpringerLink
Log in

Molecular mapping of genomic regions harboring QTLs for stalk rot resistance in sorghum

  • Published:
Euphytica Aims and scope Submit manuscript

Abstract

Stalk rot, also called as charcoal rot in India, caused by Macrophomina phaseolina, is an economically important, soil borne disease in major sorghum growing areas across the world. A population of F9 generation recombinant inbred lines (RILs), derived from IS22380 (susceptible) × E36-1 (resistant), along with parents were phenotyped in sick plots at two locations (Dharwad and Bijapur, Karnataka, India). A total of 85 polymorphic marker loci (62 nuclear and 4 genic SSRs, 19 RAPDs) was available for the construction of genetic map, spanning 650.3 cM in all the ten linkage groups. Analysis with QTL Cartographer (2.5b), adopting composite interval mapping method (LOD > 2.0) at both locations, revealed 5 QTLs at Dharwad and 4 QTLs at Bijapur locations for the component traits of charcoal rot disease resistance. QTLs for number of internodes crossed, length of infection and per cent lodging accounted for 31.83, 10.76 and 18.90 per cent at Dharwad location and 14.87, 10.47 and 26.44 per cent phenotypic variability at Bijapur location, respectively. The QTLs for number of internodes crossed by the rot, length of infection and percent lodging were common across two locations. These QTLs, consistent over environments for the component traits, are likely to assist in marker-assisted selection (MAS) for charcoal rot resistance in sorghum.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2

Similar content being viewed by others

References

  • Arun SS (2006) In silico EST data mining for elucidation of repeats biology and functional annotation in sorghum [Sorghum bicolor (L.) Moench.]. M. Sc. (Agri.) Thesis, University of Agricultural Sciences, Dharwad

  • Asians MJ (2002) Present and future of quantitative trait locus analysis in plant breeding. Plant Breed 121:281–291

    Article  Google Scholar 

  • Basten CJ, Weir BS, Zeng ZB (1994) Zmap-a QTL cartographer. In: Smith C, Gavora JS, Chesnais BBJ, Fairfull W, Gibson JP, Kennedy BW, Burnside EB (eds) Proceedings of the 5th world congress on genetics applied to livestock production: computing strategies and software, vol. 22. Guelph, Ontario, Canada, pp65–66. Organizing Committee, 5th World Congress on Genetics Applied to Livestock Production

  • Bedell JA, Budiman MA, Nunberg A, Citek RW, Robbins D, Jones J, FlicK E, Rohlfing T, Fries J, Bradford K, Mcmenamy J, Smith M, Holeman H, A Roe B, Wiley G, Korf IF, Rabinowicz PD, Lakey N, Mccombie WR, Jeddeloh JA, Martienssen RA (2005) Sorghum genome sequencing by methylation filtration. Public Library Sci Biol 3:e13

    Google Scholar 

  • Bhattramakki D, Dong J, Chhabra AK, Hart GE (2000) An integrated SSR and RFLP linkage map of sorghum (Sorghum bicolor (L.) Moench). Genome 43:988–1002

    Article  PubMed  CAS  Google Scholar 

  • Boivin K, Deu M, Rami JF, Trouche G, Hamon P (1999) Towards a saturated sorghum map using RFLP and AFLP markers. Theor Appl Genet 98:320–328

    Article  CAS  Google Scholar 

  • Brown SM, Hopkins MS, Mitchell SE, Senior ML, Wang TY, Duncan RR, Gonzalez-Candelas F, Kresorich S (1996) Multiple methods for the identification of polymorphic simple sequence repeats (SSRs) in Sorghum (Sorghum bicolor). Theor Appl Genet 93:190–198

    Article  CAS  Google Scholar 

  • Edmunds LK, Voight RL (1966) Role of seed production in predisposition of sorghum to charcoal rot. Phytopathology 56:876

    Google Scholar 

  • Edmunds LK (1964) Combined relation of plant maturity, temperature and soil moisture to charcoal stalk rot development in grain sorghum. Phytopathology 54:514–517

    Google Scholar 

  • Esechie HA, Maranville JW, Ross WM (1977) Relationship of stalk morphology and chemical composition to lodging resistance in sorghum. Crop Sci 17:609–612

    Article  CAS  Google Scholar 

  • Food and Agriculture Organization (2004) Production estimates and crop assessment division. USDA, p 28

  • Haldane JBS (1919) The combination of linkage values, and the calculation of distance between loci of linked factor. J Genet 8:299–309

    Google Scholar 

  • Haussmann BI, Hess DE Omanya GO, Folkertsma RT, Reddy BV, Kayentao M, Welz HG, Geiger HH (2004) Genomic regions influencing resistance to parasitic weed Striga hermonthica in two recombinant inbred populations of sorghum. Theor Appl Genet 109:1005–1016

    Article  PubMed  CAS  Google Scholar 

  • Haussmann BI, Hess DE, Seetharama N, Welz HG, Geiger HH (2002) Construction of a combined sorghum linkage map from two recombinant inbred populations using AFLP, SSR, RFLP and RAPD markers and comparison with other sorghum maps. Theor Appl Genet 105:629–637

    Article  PubMed  CAS  Google Scholar 

  • Lander ES, Green PL, Abrahamson J, Barlow A, Daly MJ, Lincoln S, Newburg L (1987) Mapmaker: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genome 1:174–181

    Article  CAS  Google Scholar 

  • Maunder AB (1993) Breeding for stalk rot resistance as a component of acceptable agronomic performance. In: Sorghum root and stalk rots, Critical Review. Proceedings of the consultative group discussion of research needs and strategies for control of sorghum root and stalk rot diseases, 27 November–2 December 1983, Bellagio Italy. ICRISAT, Patancheru, Andhra Pradesh, 502324 India, pp219–224

  • Mukury SZ (1992) Breeding for grain mold resistance. In: de Milliano WAJ, Frederiksen RA, Bengaston GD (eds) Sorghum and millets disease: a second world review. ICRISAT, Patancheru, Andhra Pradesh 502 324, India, pp 273–285

    Google Scholar 

  • Odvody GN, Dunkle LD (1979) Charcoal stalk rot of sorghum: effect of environment on host parasitic relations. Phytopathology 69:250–254

    Article  Google Scholar 

  • Peng Y, Schertz KF, Cartinhour S, Hart GE (1999) Comparative genome mapping of Sorghum bicolor (L.) Moench. using an RFLP map constructed in a population of recombinant inbred lines. Plant Breed 118:225–235

    Article  CAS  Google Scholar 

  • Punna R, Bantte K, Kumar ChA, Jayashree B, Folkertsma RT, Senthilve S, Mahalakshmi V, Reddy LA, Fakrudin B, Hash CT (2006) Development and mapping of EST-SSR markers in sorghum for comparative mapping with rice. In: Plant and animal genome (14–18, Jan 2006). San Diego, USA

  • Rajkumar (2004) Genetic and molecular analyses of charcoal rot resistance in sorghum. M. Sc. (Agri.) Thesis, University of Agricultural sciences, Dharwad

  • Rosenow DT (1992) Using germplasm from the world collection in breeding for disease resistance. In: de Milliano WAJ, Frederiksen RA, Bengston GD (eds) Sorghum and Millers Diseases—A second world review. ICRISAT, Patancheru, Andhra Pradesh, 502324, India, pp 319–324

    Google Scholar 

  • Russell J, Booth A, Fuller J, Harrower B, Hardly P, Machray G, Powell W (2004) A comparison of sequence based polymorphism and haplotype content in transcribed and anonymous regions of the barley genome. Genome 47:389–398

    Article  PubMed  CAS  Google Scholar 

  • Scott KD, Eggler P, Seaton G, Rossetto M (2000) Analysis of SSRs derived from grape ESTs. Theor Appl Genet 100:723–726

    Article  CAS  Google Scholar 

  • Singh RK, Chaudhary BD (1977) Biometrical methods in quantitative genetic analysis. Kalyani Publishers, New Delhi, India

    Google Scholar 

  • Sorghum Genomics Planning Workshop Participants (2005) Towards sequencing of the sorghum genome. A U.S. national science foundation-sponsored workshop report. Plant Physiol 138:1898–1902 and also see http://www.phytozome.net/sorghum

  • Taramino G, Tarchini R, Ferrario S, Lee M, Pe ME (1997) Characterization and mapping of simple sequence repeats (SSRs) in Sorghum bicolor. Theor Appl Genet 95:66–72

    Article  CAS  Google Scholar 

  • Tenkouano A, Miller FR, Frederiksen RA, Rosenow DT (1993) Genetics of nonsenescence and charcoal rot resistance in sorghum. Theor Appl Genet 85(5):644–648

    Article  Google Scholar 

  • Tesso TT, Claflin LE, Tuinstra MR (2005) Analyses of stalk rot resistance and genetic diversity among drought tolerant sorghum genotypes. Crop Sci 45:645–652

    Article  CAS  Google Scholar 

  • Tuinstra MR, Ejeta G, Goldsbrough PB (1997) Heterogenous in bred family (HIF) analysis: an approach for developing near—isogenic lines that differ at quantitative trait loci. Theor Appl Genet 95:1005–1011

    Article  CAS  Google Scholar 

  • Tuinstra MR, Grote EM, Goldsbrough PB, Ejeta G (1996) Identification of quantitative trait loci associated with pre-flowering drought tolerance in sorghum. Crop Sci 36:1337–1344

    Article  CAS  Google Scholar 

  • Xu W, Subudhi PK, Crasta OR, Rosenow DT, Mullet JE, Nguyen HT (2000) Molecular mapping of QTLs conferring stay-green in grain sorghum (Sorghum bicolor L. Moench). Genome 43:461–469

    Article  PubMed  CAS  Google Scholar 

  • Zeng ZB (1993) Theoretical basis of precision mapping of quantitative trait loci. PNAS (USA) 90:10972–10976

    Article  CAS  Google Scholar 

  • Zeng ZB (1994) Precision mapping of quantitative trait loci. Genetics 136:1457–1468

    PubMed  CAS  Google Scholar 

Download references

Acknowledgments

This work was partly funded by Department of Biotechnology, Government of India and Ministry of Information Technology and Biotechnology (IT&BT), Government of Karnataka, India. We acknowledge the expert help of Dr. Y. D. Narayan and Dr. Palakshappa in disease scoring and fungal isolation. We thank Dr. Nandi Nagaraj, Dow Agro pvt. ltd., Bangalore for helpful suggestions on QTL analysis and Dr. B. D. Biradar and Dr. G. Sajjanar for their help during the evaluation at Bijapur location

Author information

Author notes

  1. B. Fakrudin

    Present address: Division of Plant Sciences, Molecular Genetics and Soybean Biotechnology Laboratory, University of Missouri, Columbia, MO, 65211, USA

Authors and Affiliations

  1. Institute of Agri-Biotechnology, University of Agricultural Sciences, Dharwad, 580005, India

    P. Srinivasa Reddy, B. Fakrudin,  Rajkumar, S. M. Punnuri, S. S. Arun & M. S. Kuruvinashetti

  2. National Research Centre for Sorghum, Ranjendranagar, Hyderabad, India

    I. K. Das & N. Seetharama

Authors
  1. P. Srinivasa Reddy
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. B. Fakrudin
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Rajkumar
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. S. M. Punnuri
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. S. S. Arun
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. M. S. Kuruvinashetti
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. I. K. Das
    View author publications

    You can also search for this author in PubMed Google Scholar

  8. N. Seetharama
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to B. Fakrudin.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Srinivasa Reddy, P., Fakrudin, B., Rajkumar et al. Molecular mapping of genomic regions harboring QTLs for stalk rot resistance in sorghum. Euphytica 159, 191–198 (2008). https://doi.org/10.1007/s10681-007-9472-9

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s10681-007-9472-9

Keywords

Search

Navigation