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Identification and Validation of a SNP Marker Linked to the Gene HsBvm-1 for Nematode Resistance in Sugar Beet

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Abstract

The beet-cyst nematode (Heterodera schachtii Schmidt) is one of the major pests of sugar beet. The identification of molecular markers associated with nematode tolerance would be helpful for developing tolerant varieties. The aim of this study was to identify single nucleotide polymorphism (SNP) markers linked to nematode tolerance from the Beta vulgaris ssp. maritima source WB242. A WB242-derived F2 population was phenotyped for host-plant nematode reaction revealing a 3:1 segregation ratio of the tolerant and susceptible phenotypes and suggesting the action of a gene designated as HsBvm-1. Bulked segregant analysis (BSA) was used. The most tolerant and susceptible individuals were pooled and subjected to restriction site associated DNA sequencing (RAD-Seq) analysis, which identified 7,241 SNPs. A subset of 384 candidate SNPs segregating between bulks were genotyped on the 20 most-tolerant and most-susceptible individuals, identifying a single marker (SNP192) showing complete association with nematode tolerance. Segregation of SNP192 confirmed the inheritance of tolerance by a single gene. This association was further validated on a set of 26 commercial tolerant and susceptible varieties, showing the presence of the SNP192 WB242-type allele only in the tolerant varieties. We identified and mapped on chromosome 5 the first nematode tolerance gene (HsBvm-1) from Beta vulgaris ssp. maritima and released information on SNP192, a linked marker valuable for high-throughput, marker-assisted breeding of nematode tolerance in sugar beet.

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Abbreviations

SNP:

Single nucleotide polymorphisms

RAD-Seq:

Restriction site associated DNA sequencing

BSA:

Bulk segregant analysis

References

  • Barchi L, Lanteri S, Portis E, Acquadro A, Valè G, Toppino L, Rotino GL (2011) Identification of SNP and SSR markers in eggplant using RAD tag sequencing. BMC Genomics 12:304

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Biancardi E, Lewellen RT, De Biaggi M, Erichsen AW, Stevanato P (2002) The origin of rhizomania resistance in sugar beet. Euphytica 127:383–397

    Article  CAS  Google Scholar 

  • Biancardi E, McGrath JM, Panella LW, Lewellen RT, Stevanato P (2010) Sugar beet. In: Bradshaw J (ed) Handbook of plant breeding, vol 4, Tuber and Root Crops. Springer, New York, pp 173–219

    Google Scholar 

  • Biancardi E, Panella LW, Lewellen RT (2012) Beta maritima: the origin of beets Springer-Verlag New York Inc., pp 293

  • Brandes A, Jung C, Wricke G (1987) Nematode resistance derived from wild beet and its meiotic stability in sugar beet. Plant Breed 99:56–64

    Article  Google Scholar 

  • Cai D, Kleine M, Kifle S, Harloff HJ, Sandal NN, Marcker KA, Klein-Lankhorst RM, Salentijn EM, Lange W, Stiekema WJ, Wyss U, Grundler FM, Jung C (1997) Positional cloning of a gene for nematode resistance in sugar beet. Science 275:832–834

    Article  CAS  PubMed  Google Scholar 

  • Chutimanitsakun Y, Nipper RW, Cuesta-Marcos A, Cistué L, Corey A, Filichkina T, Johnson EA, Hayes PM (2011) Construction and application for QTL analysis of a restriction site associated DNA (RAD) linkage map in barley. BMC Genomics 12:4

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Conover WJ (1980) Practical non-parametric statistics. Wiley, New York, p 592

    Google Scholar 

  • Davey JW, Hohenlohe PA, Etter PD, Boone JQ, Catchen JM, Blaxter ML (2011) Genome-wide genetic marker discovery and genotyping using next-generation sequencing. Nat Rev Genet 12:499–510

    Article  CAS  PubMed  Google Scholar 

  • Jung C, Cai D, Kleine M (1998) Engineering nematode resistance in crop species. Trends Plant Sci 3:266–271

    Article  Google Scholar 

  • Kleine M, Voss H, Cai D, Jung C (1998) Evaluation of nematode-resistant sugar beet (Beta vulgaris L.) lines by molecular analysis. Theor Appl Gen 97:896–904

    Article  CAS  Google Scholar 

  • McCarter JP (2008) Molecular approaches toward resistance to plant-parasitic nematodes. In: Plant cell monographs. Springer, Berlin, pp 1–29

    Google Scholar 

  • Michelmore RW, Paran I, Kesseli RV (1991) Identification of markers linked to disease-resistance genes by bulked segregant analysis: a rapid method to detect markers in specific genomic regions by using segregating populations. Proc Natl Acad Sci USA 88:9828–9832

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Miller MR, Dunham JP, Amores A, Cresko WA, Johnson EA (2007) Rapid and cost-effective polymorphism identification and genotyping using restriction site associated DNA (RAD) markers. Genome Res 17:240–248

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Panella L, Lewellen RT (2007) Broadening the genetic base of sugar beet: introgression from wild relatives. Euphytica 154:383–400

    Article  CAS  Google Scholar 

  • Pegadaraju V, Nipper R, Hulke B, Qi L, Schultz Q (2013) De novo sequencing of sunflower genome for SNP discovery using RAD (Restriction site Associated DNA) approach. BMC Genomics 14:556

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Pelsy F, Merdinoglu D (1996) Identification and mapping of random amplified polymorphic DNA markers linked to a rhizomania resistance gene in sugar beet (Beta vulgaris L.) by bulked segregant analysis. Plant Breed 115:371–377

    Article  CAS  Google Scholar 

  • Stevanato P, Trebbi D, Saccomani M (2010) Root traits and yield in sugar beet: identification of AFLP markers associated with root elongation rate. Euphytica 173:289–298

    Article  Google Scholar 

  • Stevanato P, Broccanello C, Biscarini F, Del Corvo M, Panella L, Gaurav S, Stella A, Concheri G (2013) First application of QuantStudio platform for high throughput SNP marker assessment in sugar beet. Plant Mol Biol Rep. doi:10.1007/s11105-013-0685-x

    Google Scholar 

  • Taguchi K, Okazaki K, Takahashi H, Kubo T, Mikami T (2010) Molecular mapping of a gene conferring resistance to Aphanomyces root rot (black root) in sugar beet (Beta vulgaris L.). Euphytica 173:409–418

    Article  CAS  Google Scholar 

  • Thurau T, Ye W, Menkhaus J, Knecht K, Tang G, Cai D (2010) Plant nematode control. Sugar Tech 12:229–237

    Article  CAS  Google Scholar 

  • Touzet P, Hueber N, Burkholz A, Barnes S, Cuguen J (2004) Genetic analysis of male fertility restoration in wild cytoplasmic male sterility G of beet. Theor Appl Genet 109:240–247

    Article  PubMed  Google Scholar 

  • Van Ooijen JW (2011) Multipoint maximum likelihood mapping in a full-sib family of an outbreeding species. Gen Res 93:343–349

    Article  Google Scholar 

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Acknowledgments

The authors thanks Robert Lewellen and Enrico Biancardi for their insightful comments on this study.

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Authors and Affiliations

  1. DAFNAE, Dipartimento di Agronomia Animali Alimenti Risorse Naturali e Ambiente, Università degli Studi di Padova, viale Università 16, 35020, Legnaro, PD, Italy

    Piergiorgio Stevanato, Daniele Trebbi, Chiara Broccanello & Massimo Saccomani

  2. USDA-ARS, NPA, Sugarbeet Research Unit, Crops Research Laboratory, 1701 Centre Ave, Fort Collins, CO, 80526-2083, USA

    Lee Panella

  3. USDA-ARS, Crop Improvement and Protection Research Unit, 1636 East Alisal Street, Salinas, CA, 93905, USA

    Kelley Richardson & Linda Pakish

  4. Beet Sugar Development Foundation, Crops Research Laboratory, 1701 Centre Ave, Fort Collins, CO, 80526-2083, USA

    Ann L. Fenwick

Authors
  1. Piergiorgio Stevanato
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  2. Daniele Trebbi
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  3. Lee Panella
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  4. Kelley Richardson
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  5. Chiara Broccanello
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  6. Linda Pakish
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  7. Ann L. Fenwick
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  8. Massimo Saccomani
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Corresponding author

Correspondence to Piergiorgio Stevanato.

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Stevanato, P., Trebbi, D., Panella, L. et al. Identification and Validation of a SNP Marker Linked to the Gene HsBvm-1 for Nematode Resistance in Sugar Beet. Plant Mol Biol Rep 33, 474–479 (2015). https://doi.org/10.1007/s11105-014-0763-8

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  • DOI: https://doi.org/10.1007/s11105-014-0763-8

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