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High-density genetic map of durum wheat × wild emmer wheat based on SSR and DArT markers

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Abstract

A genetic linkage map of tetraploid wheat was constructed based on a cross between durum wheat [Triticum turgidum ssp. durum (Desf.) MacKey] cultivar Langdon and wild emmer wheat [T. turgidum ssp. dicoccoides (Körn.) Thell.] accession G18-16. One hundred and fifty-two single-seed descent derived F6 recombinant inbred lines (RILs) were analyzed with a total of 690 loci, including 197 microsatellite and 493 DArT markers. Linkage analysis defined 14 linkage groups. Most markers were mapped to the B-genome (60%), with an average of 57 markers per chromosome and the remaining 40% mapped to the A-genome, with an average of 39 markers per chromosome. To construct a stabilized (skeleton) map, markers interfering with map stability were removed. The skeleton map consisted of 307 markers with a total length of 2,317 cM and average distance of 7.5 cM between adjacent markers. The length of individual chromosomes ranged between 112 cM for chromosome 4B to 217 cM for chromosome 3B. A fraction (30.1%) of the markers deviated significantly from the expected Mendelian ratios; clusters of loci showing distorted segregation were found on chromosomes 1A, 1BL, 2BS, 3B, and 4B. DArT markers showed high proportion of clustering, which may be indicative of gene-rich regions. Three hundred and fifty-two new DArT markers were mapped for the first time on the current map. This map provides a useful groundwork for further genetic analyses of important quantitative traits, positional cloning, and marker-assisted selection, as well as for genome comparative genomics and genome organization studies in wheat and other cereals.

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References

  • Akbari M, Wenzl P, Caig V, Carling J, Xia L, Yang S, Uszynski G, Mohler V, Lehmensiek A, Kuchel H, Hayden MJ, Howes N, Sharp P, Vaughan P, Rathmell B, Huttner E, Kilian A (2006) Diversity arrays technology (DArT) for high throughput profiling of hexaploid wheat genome. Theor Appl Genet 113:1409–1420

    Article  PubMed  CAS  Google Scholar 

  • Blanco A, Bellomo MP, Cenci A, De Giovanni C, D’Ovidio R, Iacono E, Laddomada B, Pagnotta MA, Porceddu E, Sciancalepore A, Simeone R, Tanzarella OA (1998) A genetic linkage map of durum wheat. Theor Appl Genet 97:721–728

    Article  CAS  Google Scholar 

  • Blanco A, Simeone R, Cenci A, Gadaleta A, Tanzarella OA, Porceddu E, Salvi S, Tuberosa R, Figliuolo G, Spagnoletti P, Röder MS, Korzun V (2004) Extension of the “Messapia × dicoccoides” linkage map of Triticum turgidum (L.) Thell. Cell Mol Biol Lett 9:529–541

    PubMed  CAS  Google Scholar 

  • Cadalen T, Boeuf C, Bernard S, Bernard M (1997) An intervarietal molecular marker map in Triticum aestivum L em Thell and comparison with a map from a wide cross. Theor Appl Genet 94:367–377

    Article  CAS  Google Scholar 

  • Campbell KG, Bergman CJ, Gualberto DG, Anderson JA, Giroux MJ, Hareland G, Fulcher RG, Sorrells ME, Finney PL (1999) Quantitative trait loci associated with kernel traits in a soft × hard wheat cross. Crop Sci 39:1184–1195

    CAS  Google Scholar 

  • Causse MA, Fulton TM, Cho YG, Ahn SN, Chunwongse J, Wu KS, Xiao JH, Yu ZH, Ronald PC, Harringtion SE, Second G, McCouch SR, Tanksley SD (1994) Saturated molecular map of the rice genome based on an interspecific backcross population. Genetics 138:1251–1274

    PubMed  CAS  Google Scholar 

  • Chalmers KJ, Campbell AW, Kretschmer J, Karakousis A, Henschke PH, Pierens S, Harker N, Pallotta M, Cornish GB, Shariflou MR, Rampling LR, McLauchlan A, Daggard G, Sharp PJ, Holton TA, Sutherland MW, Appels R, Langridge P (2001) Construction of three linkage maps in bread wheat, Triticum aestivum. Aust J Agric Res 52:1089–1119

    Article  CAS  Google Scholar 

  • Devaux P, Kilian A, Kleinhofs A (1995) Comparative mapping of the barley genome with male and female recombination-derived, doubled haploid populations. Mol Gen Genet 249:600–608

    Article  PubMed  CAS  Google Scholar 

  • Devos KM, Dubcovsky J, Dvořák J, Chinoy CN, Gale MD (1995) Structural evolution of wheat chromosomes 4A, 5A, and 7B and its impact on recombination. Theor Appl Genet 91:282–288

    Article  CAS  Google Scholar 

  • Dvořák J, Chen K-C (1984) Distribution of nonstructural variation between wheat cultivars along chromosome arm 6B: evidence from the linkage map and physical map of the arm. Genetics 106:325–333

    PubMed  Google Scholar 

  • Elouafi I, Nachit MM (2004) A genetic linkage map of the Durum × Triticum dicoccoides backcross population based on SSRs and AFLP markers, and QTL analysis for milling traits. Theor Appl Genet 108:401–413

    Article  PubMed  CAS  Google Scholar 

  • Esch E, Weber WE (2002) Investigation of crossover interference in barley (Hordeum vulgare L.) using the coefficient of coincidence. Theor Appl Genet 104:786–796

    Article  PubMed  Google Scholar 

  • Eujayl I, Sorrells MM, Baum M, Wolters P, Powell W (2002) Isolation of EST-derived microsatellite markers for genotyping the A and B genomes of wheat. Theor Appl Genet 104:399–407

    Article  PubMed  CAS  Google Scholar 

  • FAOstat (2007) The Statistics Division, Food and Agriculture Organization of the United Nations, Rome. http://faostat.fao.org

  • Faris JD, Haen KM, Gill BS (2000) Saturation mapping of a gene-rich recombination hot spot region in wheat. Genetics 154:823–835

    PubMed  CAS  Google Scholar 

  • Feldman M (2001) The origin of cultivated wheat. In: Bonjean AP, Angus WJ (eds) The world wheat book. Lavoisier Tech & Doc, Paris

    Google Scholar 

  • Ganal MW, Röder MS (2007) Microsatellite and SNP markers in wheat breeding. In: Varshney RK, Tuberosa R (eds) Genomics-assisted crop improvement, vol 2. Genomics applications in crops. Springer, Berlin

    Google Scholar 

  • Gale MD, Atkinson MD, Chinoy CN, Harcourt RL, Jia J, Li QY, Devos KM (1995) Genetic maps of hexaploid wheat. In: Li ZS, Xin ZY (eds) Proceedings of 8th international wheat genetics symposium, China Agricultural Scientech Press, Beijing, pp 29–40

  • Gill KS, Gill BS, Endo TR, Boyko EV (1996a) Identification of high-density mapping of gene-rich regions in chromosome group 5 of wheat. Genetics 143:1001–1012

    PubMed  CAS  Google Scholar 

  • Gill KS, Gill BS, Endo TR, Taylor T (1996b) Identification and high-density mapping of gene-rich regions in chromosome group 1 of wheat. Genetics 144:1883–1891

    PubMed  CAS  Google Scholar 

  • Graner A, Jahoor A, Schondelmaier J, Siedler H, Pillen K, Fischbeck G, Wenzel G, Herrmann RG (1991) Construction of an RFLP map of barley. Theor Appl Genet 83:250–256

    Article  Google Scholar 

  • Gupta PK, Balyan HS, Edwards KJ, Isaac P, Korzun V, Röder M, Gautier MF, Joudrier P, Schlatter AR, Dubcovsky J, De la Pena RC, Khairallah M, Penner G, Hayden MJ, Sharp P, Keller B, Wang RCC, Hardouin JP, Jack P, Leroy P (2002) Genetic mapping of 66 new microsatellite (SSR) loci in bread wheat. Theor Appl Genet 105:413–422

    Article  PubMed  CAS  Google Scholar 

  • Guyomarc’h H, Sourdille P, Charmet G, Edwards KJ, Bernard M (2002) Characterization of polymorphic microsatellite markers from Aegilops tauschii and transferability to the D genome of bread wheat. Theor Appl Genet 104:1164–1172

    Article  PubMed  CAS  Google Scholar 

  • Harlan JR, Zohary D (1966) Distribution of wild emmer wheat and barley. Science 153:1074–1080

    Article  PubMed  Google Scholar 

  • Hearnden PR, Eckermann PJ, McMichael GL, Hayden MJ, Eglinton JK, Chalmers KJ (2007) A genetic map of 1,000 SSR and DArT markers in a wide barley cross. Theor Appl Genet 115:383–391

    Article  PubMed  CAS  Google Scholar 

  • Jaccoud D, Peng K, Feinstein D, Kilian A (2001) Diversity arrays: a solid state technology for sequence information independent genotyping. Nucleic Acids Res 29:e25

    Article  PubMed  CAS  Google Scholar 

  • Korol AB, Preygel IA, Preygel SI (1994) Recombination variability and evolution. Chapman & Hall, London

    Google Scholar 

  • Kosambi DD (1944) The estimation of map distances from recombination values. Ann Eugen 12:172–175

    Google Scholar 

  • Kumar S, Gill B, Faris JD (2007) Identification and characterization of segregation distortion loci along chromosome 5B in tetraploid wheat. Mol Genet Genomics 278:187–196

    Article  PubMed  CAS  Google Scholar 

  • Langridge P, Paltridge N, Fincher G (2006) Functional genomics of abiotic stress tolerance in cereals. Brief Funct Genomic Proteomic 4:343–354

    Article  PubMed  CAS  Google Scholar 

  • Liu ZH, Anderson JA, Hu J, Friesen TL, Rasmussen JB, Faris JD (2005) A wheat intervarietal genetic linkage map based on microsatellite and target region amplified polymorphism markers and its utility for detecting quantitative trait loci. Theor Appl Genet 111:782–794

    Article  PubMed  CAS  Google Scholar 

  • Lu H, Romero-Severson J, Bernardo R (2002) Chromosomal regions associated with segregation distortion in maize. Theor Appl Genet 105:622–628

    Article  PubMed  CAS  Google Scholar 

  • Lyttle TW (1991) Segregation distorters. Annu Rev Genet 25:511–557

    Article  PubMed  CAS  Google Scholar 

  • Messmer MM, Keller M, Zanetti S, Keller B (1999) Genetic linkage map of wheat × spelt cross. Theor Appl Genet 98:1163–1170

    Article  CAS  Google Scholar 

  • Mester DI, Ronin YI, Hu Y, Peng J, Nevo E, Korol AB (2003a) Efficient multipoint mapping: making use of dominant repulsion-phase markers. Theor Appl Genet 107:1002–1112

    Article  CAS  Google Scholar 

  • Mester D, Ronin Y, Minkov D, Nevo E, Korol AB (2003b) Constructing large-scale genetic maps using an evolutionary strategy algorithm. Genetics 165:2269–2282

    PubMed  CAS  Google Scholar 

  • Mester DI, Ronin YI, Nevo E, Korol AB (2004) Fast and high precision algorithms for optimization in large scale genomic problems. Comput Biol Chem 28:281–290

    Article  PubMed  CAS  Google Scholar 

  • Moore G (2000) Cereal chromosome structure, evolution, and pairing. Annu Rev Plant Physiol Plant Mol Biol 51:195–222

    Article  PubMed  CAS  Google Scholar 

  • Nachit MM, Elouafi I, Pagnotta MA, El Saleh A, Iacono E, Labhili M, Asbati A, Azrak M, Hazzam H, Benscher D, Khairallah M, Ribaut J-M, Tanzarella OA, Porceddu E, Sorrells ME (2001) Molecular linkage map for an intraspecific recombinant inbred population of durum wheat (Triticum turgidum L. var. durum). Theor Appl Genet 102:177–186

    Article  CAS  Google Scholar 

  • Nevo E, Korol AB, Beiles A, Fahima T (2002) Evolution of wild emmer and wheat improvement: population genetics, genetic resources, and genome organization of wheat’s progenitor, Triticum dicoccoides. Springer, Berlin

    Google Scholar 

  • Paillard S, Schnurbusch T, Winzeler M, Messmer M, Sourdille P, Abderhalden O, Keller B, Schachermayr G (2003) An integrative genetic linkage map of winter wheat (Triticum aestivum L.). Theor Appl Genet 107:1235–1242

    Article  PubMed  CAS  Google Scholar 

  • Peleg Z, Fahima T, Abbo S, Krugman T, Nevo E, Yakir D, Saranga Y (2005) Genetic diversity for drought resistance in wild emmer wheat and its ecogeographical associations. Plant Cell Environ 28:176–191

    Article  Google Scholar 

  • Peng JH, Fahima T, Röder MS, Li YC, Grama A, Ronin YI, Korol AB, Nevo E (2000) Molecular genetic maps in wild emmer wheat, Triticum dicoccoides: genome-wide coverage, massive negative interference, and putative quasi-linkage. Genome Res 10:1059–1031

    Article  Google Scholar 

  • Qi LL, Echalier B, Chao S, Lazo GR, Butler GE, Anderson OD, Akhunov ED, Dvořák J, Linkiewicz AM, Ratnasiri A, Dubcovsky J, Bermudez-Kandianis CE, Greene RA, Kantety R, La Rota M, Munkvold JD, Sorrells SF, Sorrells ME, Dilbirligi M, Sidhu D, Erayman M, Randhawa HS, Sandhu D, Bondareva S, Gill KS, Mahmoud AA, Ma X-F, Miftahudin, Gustafson JP, Conley EJ, Nduati V, Gonzalez-Hernandez JL, Anderson JA, Peng JH, Lapitan NLV, Hossain KG, Kalavacharla V, Kianian SF, Pathan MS, Zhang D, Nguyen HT, Choi DW, Close TJ, McGuire PE, Qualset CO, Gill BS (2004) A chromosome bin map of 16,000 EST loci and distribution of genes among the three genomes of polyploid wheat. Genetics 168:701–712

  • Quarrie SA, Steed A, Calestani C, Semikhodskii A, Lebreton C, Chinoy C, Steele N, Pljevljakusić D, Waterman E, Weyen EJ, Schondelmaier J, Habash DZ, Farmer P, Saker L, Clarkson DT, Abugalieva A, Yessimbekova M, Turuspekov Y, Abugalieva S, Tuberosa R, Sanguineti M-C, Hollington PA, Aragués R, Royo A, Dodig D (2005) A high-density genetic map of hexaploid wheat (Triticum aestivum L.) from the cross Chinese Spring × SQ1 and its use to compare QTLs for grain yield across a range of environments. Theor Appl Genet 110:865–880

    Article  PubMed  CAS  Google Scholar 

  • Röder MS, Korzun V, Wendehake K, Plaschke J, Tixier MH, Leroy P, Ganal MW (1998) A microsatellite map of wheat. Genetics 149:2007–2023

    PubMed  Google Scholar 

  • Röder MS, Plaschke J, Konig SU, Börner A, Sorrells ME, Tanksley SD, Ganal MW (1995) Abundance, variability and chromosomal location of microsatellites in wheat. Mol Genet Genomics 246:327–333

    Article  Google Scholar 

  • Ronin Y, Mester D, Minkov D, Korol AB (2008) A new strategy for building reliable dense genetic maps. Genetics (In press)

  • Semagn K, Bjornstad A, Skinnes H, Maroy AG, Tarkegne Y, William M (2006) Distribution of DArT, AFLP, and SSR markers in a genetic linkage map of a doubled-haploid hexaploid wheat population. Genome 49:545–555

    Article  PubMed  CAS  Google Scholar 

  • Singh K, Ghai M, Garg M, Chhuneja P, Kaur P, Schnurbusch T, Keller B, Dhaliwal HS (2007) An integrated molecular linkage map of diploid wheat based on a Triticum boeoticum × T. monococcum RIL population. Theor Appl Genet 115:301–312

    Article  PubMed  CAS  Google Scholar 

  • Song QJ, Shi JR, Singh S, Fickus EW, Costa JM, Lewis J, Gill BS, Ward R, Cregan PB (2005) Development and mapping of microsatellite (SSR) markers in wheat. Theor Appl Genet 110:550–560

    Article  PubMed  CAS  Google Scholar 

  • Sourdille P, Singh S, Cadalen T, Brown-Guedira GL, Gay G, Qi L, Gill BS, Dufour P, Murigneux A, Bernard M (2004) Microsatellite-based deletion bin system for the establishment of genetic-physical map relationships in wheat (Triticum aestivum L.). Funct Integr Genomics 4:12–25

    Article  PubMed  CAS  Google Scholar 

  • Tanksley SD, Ganal MW, Prince JP, de Vicente MC (1992) High density molecular linkage maps of the tomato and potato genomes: biological inferences and practical applications. Genetics 132:1141–1160

    PubMed  CAS  Google Scholar 

  • Varshney RK, Langridge P, Graner A (2007) Application of genomics to molecular breeding of wheat and barley. Adv Genet 58:121–155

    Article  PubMed  CAS  Google Scholar 

  • Wendel JF, Edwards MD, Stuber CW (1987) Evidence for multilocus genetic control of preferential fertilization in maize. Heredity 58:297–302

    Article  PubMed  Google Scholar 

  • Weng Y, Lazar MD (2002) Comparison of homoeologous group-6 short arm physical maps of wheat and barley reveals a similar distribution of recombinogenic and gene-rich regions. Theor Appl Genet 104:1078–1085

    Article  PubMed  CAS  Google Scholar 

  • Wenzl P, Carling J, Kudrna D, Jaccoud D, Huttner E, Kleinhofs A, Kilian A (2004) Diversity arrays technology (DArT) for whole-genome profiling of barley. Proc Natl Acad Sci USA 101:9915–9920

    Article  PubMed  CAS  Google Scholar 

  • Xu Y, Zhu L, Xiao J, Huang N, McCouch SR (1997) Chromosomal regions associated with segregation distortion of molecular markers in F2, backcross, doubled haploid, and recombinant inbred populations of rice (Oryza sativa L.). Mol Gen Genet 253:535–545

    Article  PubMed  CAS  Google Scholar 

  • Yu J-K, Dake TM, Singh S, Benscher D, Li W, Gill B, Sorrells ME (2004) Development and mapping of EST-derived simple sequence repeat markers for hexaploid wheat. Genome 47:805–818

    Article  PubMed  CAS  Google Scholar 

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Acknowledgments

This study was supported by The Israel Science Foundation grants #1089/04 and 608/03 and equipment grants #048/99 and 1478/04. The authors thank R. Ben David for skillful assistance in the genotyping and D. Minkov for technical assistance with genetic map construction.

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Authors and Affiliations

  1. Department of Evolutionary and Environmental Biology, The Institute of Evolution, Faculty of Science and Science Education, University of Haifa, Mt. Carmel, 31905, Haifa, Israel

    Zvi Peleg, Tatiana Suprunova, Yefim Ronin, Abraham B. Korol & Tzion Fahima

  2. The R. H. Smith Institute of Plant Science and Genetics in Agriculture, The Hebrew University of Jerusalem, 76100, Rehovot, Israel

    Zvi Peleg & Yehoshua Saranga

  3. Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), 06466, Gatersleben, Germany

    Marion S. Röder

  4. Diversity Arrays Technology P/L, 1 Wilf Crane Crescent, Yarralumla, Canberra, ACT, 2600, Australia

    Andrzej Kilian

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  1. Zvi Peleg
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  2. Yehoshua Saranga
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  3. Tatiana Suprunova
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  4. Yefim Ronin
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  7. Abraham B. Korol
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  8. Tzion Fahima
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Correspondence to Tzion Fahima.

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Communicated by A. Schulman.

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Peleg, Z., Saranga, Y., Suprunova, T. et al. High-density genetic map of durum wheat × wild emmer wheat based on SSR and DArT markers. Theor Appl Genet 117, 103–115 (2008). https://doi.org/10.1007/s00122-008-0756-9

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  • DOI: https://doi.org/10.1007/s00122-008-0756-9

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