Advertisement

General Considerations: Marker-Assisted Selection

  • V. Mohler
  • C. Singrün
Part of the Biotechnology in Agriculture and Forestry book series (AGRICULTURE, volume 55)

Keywords

Quantitative Trait Locus Amplify Fragment Length Polymorphism Simple Sequence Repeat Marker Stripe Rust Quantitative Trait Locus Effect 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  1. Ahmad M (2000) Molecular marker-assisted selection of HMW glutenin alleles related to wheat bread quality by PCR-generated DNA markers. Theor Appl Genet 101:892–896CrossRefGoogle Scholar
  2. Ahmadian A, Gharizadeh B, Gustafsson AC, Sterky F, Nyren P, Uhlen M, Lundeberg J (2000) Single nucleotide polymorphism analysis by pyrosequencing. Anal Biochem 280:103–110Google Scholar
  3. Ajmone Marsan P, Gorni C, Chittò A, Redaelli R, van Vijk R, Stam P, Motto M (2001). Identification of QTLs for grain yield and grain-related traits of maize (Zea mays L.) using an AFLP map, different testers, and cofactor analysis. Theor Appl Genet 102:230–243CrossRefGoogle Scholar
  4. Ayala L, Henry M, González-de-León D, van Ginkel M, Mujeeb-Kazi A, Keller B, Khairallah M (2001) A diagnostic molecular marker allowing the study of Th. intermedium-derived resistance to BYDV in bread wheat segregating populations. Theor Appl Genet 102:942–949CrossRefGoogle Scholar
  5. Ayoub M, Armstrong E, Bridger G, Fortin MG, Mather DE (2003) Marker-based selection in barley for a QTL region affecting a-amylase activity of malt. Crop Sci 43:556–561Google Scholar
  6. Cao J, Zhao J-Z, Tang JD, Shelton AM, Earle ED (2002) Broccoli plants with pyramided cry1Ac and cry1C Bt genes control diamondback moths resistant to Cry1A and Cry1C proteins. Theor Appl Genet 105:258–264CrossRefPubMedGoogle Scholar
  7. Castro AJ, Chen X, Corey A, Filichkina T, Hayes PM, Mundt C, Richardson K, Sandoval-Islas S, Vivar H (2003a) Pyramiding and validation of quantitative trait locus (QTL) alleles determining resistance to barley stripe rust: effects on adult plant resistance. Crop Sci 43:2234–2239Google Scholar
  8. Castro AJ, Chen X, Hayes PM, Johnston M (2003b) Pyramiding quantitative trait locus (QTL) alleles determining resistance to barley stripe rust: effects on resistance at the seedling stage. Crop Sci 43:651–659Google Scholar
  9. Cattivelli L, Baldi P, Crosatti C, di Fonzo N, Faccioli P, Grossi M, Mastrangelo AM, Pecchioni N, Stanca AM (2002) Chromosome regions and stress-related sequences involved in resistance to abiotic stress in Triticeae. Plant Mol Biol 48:649–665CrossRefPubMedGoogle Scholar
  10. Chen S, Lin XH, Xu CG, Zhang Q (2000) Improvement of bacterial blight resistance of ‘Minghui 63', an elite restorer line of hybrid rice, by molecular marker-assisted selection. Crop Sci 40:239–244Google Scholar
  11. Chen S, Xu CG, Lin XH, Zhang Q (2001) Improving bacterial blight resistance of 6078, an elite restorer line of hybrid rice, by molecular marker-assisted selection. Plant Breed 120:133–137Google Scholar
  12. Chen X, Soria MA, Yan G, Sun J, Dubcovsky J (2003) Development of sequence tagged site and cleaved amplified polymorphic sequence markers for wheat stripe rust resistance gene Yr5. Crop Sci 43:2058–2064Google Scholar
  13. Chunwongse J, Martin GB, Tanksley SD (1993) Pregermination genotypic screening using PCR amplification of half seeds. Theor Appl Genet 86:694–698CrossRefGoogle Scholar
  14. Datta K, Baisakh N, Maung Thet K, Tu J, Datta SK (2002) Pyramiding transgenes for multiple resistance in rice against bacterial blight, yellow stem borer and sheath blight. Theor Appl Genet 106:1–8PubMedGoogle Scholar
  15. Ellis MH, Spielmeyer W, Gale KR, Rebetzke GJ, Richards RA (2002) ”Perfect” markers for the Rht-B1b and Rht-D1b dwarfing genes in wheat. Theor Appl Genet 105:1038–1042PubMedGoogle Scholar
  16. Eshed Y, Zamir D (1995) An introgression line population of Lycopersicon pennellii in the cultivated tomato enables the identification and fine mapping of yield-associated QTL. Genetics 141:1147–1162PubMedGoogle Scholar
  17. Ford CM, Paltridge NG, Rathjen JP, Moritz RL, Simpson RJ, Symons RH (1998) Assays for Yd2, the barley yellow dwarf virus resistance gene, based on the nucleotide sequence of a closely linked gene. Mol Breed 4:23–31Google Scholar
  18. Graner A, Streng S, Kellermann A, Schiemann A, Bauer E, Waugh R, Pellio B, Ordon F (1999) Molecular mapping and genetic fine-structure of the rym5 locus encoding resistance to different strains of the Barley Yellow Mosaic Virus Complex. Theor Appl Genet 98:285–290Google Scholar
  19. Han F, Romagosa I, Ullrich SE, Jones BL, Hayes PM, Wesenberg DM (1997) Molecular marker assisted selection for malting quality traits in barley. Mol Breed 3:427–437CrossRefGoogle Scholar
  20. Hartl L, Mohler V, Zeller FJ, Hsam SLK, Schweizer G (1999) Identification of AFLP markers closely linked to the powdery mildew resistance genes Pm1c and Pm4a in common wheat (Triticum aestivum L.). Genome 42:322–329Google Scholar
  21. Helguera M, Khan IA, Dubcovsky J (2000) Development of PCR markers for wheat leaf rust resistance gene Lr47. Theor Appl Genet 101:625–631CrossRefGoogle Scholar
  22. Hittalmani S,· Parco A, Mew TV, Zeigler RS, Huang N (2000) Fine mapping and DNA marker-assisted pyramiding of the three major genes for blast resistance in rice. Theor Appl Genet 100:1121–1128CrossRefGoogle Scholar
  23. Huang L, Gill BS (2001) An RGA-like marker detects all known Lr21 leaf rust resistance gene family members in Aegilops tauschii and wheat. Theor Appl Genet 103:1007–1013CrossRefGoogle Scholar
  24. Huang N, Angeles ER, Domingo J, Magpantay G, Singh S, Zhang G, Kumaravadivel N, Bennett J, Khush GS (1997) Pyramiding of bacterial blight resistance genes in rice: marker-assisted selection using RFLP and PCR. Theor Appl Genet 95:313–320Google Scholar
  25. Huang XQ, Hsam SLK, Zeller FJ, Wenzel G, Mohler V (2000) Molecular mapping of the wheat powdery mildew resistance gene Pm24 and marker validation for molecular breeding. Theor Appl Genet 101:407–414CrossRefGoogle Scholar
  26. Igartua E, Edney M, Rossnagel BG, Spaner D, Legge WG, Scoles GJ, Eckstein PE, Penner GA, Tinker NA, Briggs KG, Falk DE, Mather DE (2000) Marker-based selection of QTL affecting grain and malt quality in two-row barley. Crop Sci 40:1426–1433Google Scholar
  27. Igrejas G, Leroy P, Charmet G, Gaborit T, Marion D, Branlard G (2002) Mapping QTLs for grain hardness and puroindoline content in wheat (Triticum aestivum L.). Theor Appl Genet 106:19–27PubMedGoogle Scholar
  28. Jefferies SP, King BJ, Barr AR, Warner P, Logue SJ, Langridge P (2003) Marker-assisted backcross introgression of the Yd2 gene conferring resistance to barley yellow dwarf virus in barley. Plant Breed 122:52–56Google Scholar
  29. Kandemir N, Kudrna DA, Ullrich SE, Kleinhofs A (2000) Molecular marker assisted genetic analysis of head shattering in six-rowed barley. Theor Appl Genet 101:203–210Google Scholar
  30. Kasai K, Morikawa Y, Sorri VA, Valkonen JPT, Gebhardt C, Watanabe KN (2000) Development of SCAR markers to the PVY resistance gene Ryadg based on a common feature of plant disease resistance genes. Genome 43:1–8CrossRefPubMedGoogle Scholar
  31. Koebner RMD, Summers RW (2003) 21st century wheat breeding: plot selection or plate detection? Trends Biotechnol 21:59–63PubMedGoogle Scholar
  32. Konieczny A, Ausubel F (1993) A procedure for mapping Arabidopsis mutations using codominant ecotype-specific PCR-based markers. Plant J 4:403–410CrossRefPubMedGoogle Scholar
  33. Korzun V, Röder MS, Ganal MW, Worland AJ, Law CN (1998) Genetic analysis of the dwarfing gene (Rht8) in wheat, part I. Molecular mapping of Rht8 on the short arm of chromosome 2D of bread wheat (Triticum aestivum L.). Theor Appl Genet 96:1104–1109CrossRefGoogle Scholar
  34. Lande R, Thompson R (1990) Efficiency of marker-assisted selection in the improvement of quantitative traits. Genetics 124:743–756PubMedGoogle Scholar
  35. Leister D, Kurth J, Laurie DA, Yano M, Sasaki T, Graner A, Schulze-Lefert P (1999) RFLP and physical mapping of resistance gene homologues in rice (O. sativa) and barley (H. vulgare). Theor Appl Genet 98:509–520CrossRefGoogle Scholar
  36. Lindhout P (2002) The perspective of polygenic resistance in breeding for durable disease resistance. Euphytica 124:217–226CrossRefGoogle Scholar
  37. Liu J, Liu D, Tao W, Li W, Wang S, Chen P, Cheng S, Gao D (2000) Molecular marker-facilitated pyramiding of different genes for powdery mildew resistance in wheat. Plant Breed 119:21–24CrossRefGoogle Scholar
  38. Madsen LH, Collins NC, Rakwalska M, Backes G, Sandal N, Krusell L, Jensen J, Waterman EH, Jahoor A, Ayliffe M, Pryor AJ, Langridge P, Schulze-Lefert P, Stougaard J (2003) Barley disease resistance gene analogs of the NBS-LRR class: identification and mapping. Mol Gen Genomics 269:150–161Google Scholar
  39. McLauchlan A, Ogbonnaya FC, Hollingsworth B, Carter M, Gale KR, Henry RJ, Holton TA, Morell MK, Rampling LR, Sharp PJ, Shariflou MR, Jones MGK, Appels R (2001) Development of robust PCR-based DNA markers for each homoeo-allele of granule-bound starch synthase and their application in wheat breeding programs. Aust J Agr Res 52:1409–1416CrossRefGoogle Scholar
  40. Meksem K, Ruben E, Hyten DL, Schmidt ME, Lightfoot DA (2001) High-throughput genotyping for a polymorphism linked to soybean cyst nematode resistance gene Rhg4 by using Taqman probes. Mol Breed 7:63–71CrossRefGoogle Scholar
  41. Melchinger AE, Utz HF, Schön CC (1998) Quantitative trait locus (QTL) mapping using different testers and independent population samples in maize reveals low power of QTL detection and large bias in estimates of QTL effects. Genetics 149:383–403PubMedGoogle Scholar
  42. Mohler V, Hsam SLK, Zeller FJ, Wenzel G (2001) An STS marker distinguishing the rye-derived powdery mildew resistance alleles at the Pm8/Pm17 locus of common wheat (T. aestivum L. em Thell.). Plant Breed 120:448–450Google Scholar
  43. Mohler V, Klahr A, Wenzel G, Schwarz G (2002) A resistance gene analog useful for targeting disease resistance genes against different pathogens on group 1S chromosomes of barley, wheat and rye. Theor Appl Genet 105:364–368CrossRefPubMedGoogle Scholar
  44. Monforte AJ, Tanksley SD (2000) Fine mapping of a quantitative trait locus (QTL) from Lycopersicon hirsutum chromosome 1 affecting fruit characteristics and agronomic traits: breaking linkage among QTLs affecting different traits and dissection of heterosis for yield. Theor Appl Genet 100:471–479Google Scholar
  45. Mundt CC (1990) Probability of mutation to multiple virulence and durability of resistance gene pyramids. Phytopathology 80:221–223Google Scholar
  46. Oefner PJ, Underhill PA (1998) DNA mutation detection using denaturing high-performance liquid chromatography (DHPLC). In: Dracopoli NC, Haines JL, Korf BR, Moir DT, Morton CC, Seidman CE (eds) Current protocols in human genetics (supplement 19). Wiley, New York, pp 7.10.1–7.10.12Google Scholar
  47. Ogbonnaya FC, Subrahmanyam NC, Moullet O, de Majnik J, Eagles HA, Brown JS, Eastwood RF, Kollmorgen J, Appels R, Lagudah ES (2001) Diagnostic DNA markers for cereal cyst nematode resistance in bread wheat. Aust J Agric Res 52:1367–1374Google Scholar
  48. Paltridge NG, Collins NC, Bendahmane A, Symons RH (1998) Development of YLM, a codominant PCR marker closely linked to the Yd2 gene for resistance to barley yellow dwarf disease. Theor Appl Genet 96:1170–1177CrossRefGoogle Scholar
  49. Peleman JD, van der Voort JR (2003) Breeding by design. Trends Plant Sci 8:330–334CrossRefPubMedGoogle Scholar
  50. Peng JH, Fahima T, Röder MS, Li YC, Grama A, Nevo E (2000) Microsatellite high-density mapping of the stripe rust resistance gene YrH52 region on chromosome 1B and evaluation of its marker-assisted selection in the F2 generation in wild emmer wheat. New Phytol 146:141–154CrossRefGoogle Scholar
  51. Price AH, Cairns JE, Horton P, Jones HG, Griffiths H (2002) Linking drought-resistance mechanisms to drought avoidance in upland rice using a QTL approach: progress and new opportunities to integrate stomatal and mesophyll responses. J Exp Bot 53:989–1004CrossRefPubMedGoogle Scholar
  52. Rafalski A (2002) Applications of single nucleotide polymorphisms in crop genetics. Curr Opin Plant Biol 5:94–100CrossRefPubMedGoogle Scholar
  53. Reyna N, Sneller CH (2001) Evaluation of marker-assisted introgression of yield QTL alleles into adapted soybean. Crop Sci 41:1317–1321Google Scholar
  54. Romagosa I, Han F, Ullrich SE, Hayes PM, Wesenberg DM (1999) Verification of yield QTL through realized molecular marker-assisted selection responses in a barley cross. Mol Breed 5:143–152CrossRefGoogle Scholar
  55. Ronning CM, Stegalkina SS, Ascenzi RA, Bougri O, Hart AL, Utterbach TR, Vanaken SE, Riedmuller SB, White JA, Cho J, Pertea GM, Lee Y, Karamycheva S, Sultana R, Tsai J, Quackenbush J, Griffiths HM, Restrepo S, Smart CD, Fry WE, van der Hoeven R, Tanksley S, Zhang P, Jin H, Yamamoto ML, Baker BJ, Buell CR (2003) Comparative analyses of potato expressed sequence tag libraries. Plant Physiol 131:419–429CrossRefPubMedGoogle Scholar
  56. Sanchez AC, Brar DS, Huang N, Li Z, Khush GS (2000) Sequence tagged site marker-assisted selection for three bacterial blight resistance genes in rice. Crop Sci 40:792–797Google Scholar
  57. Sax K (1923) The association of size differences with seed-coat pattern and pigmentation in Phaseolus vulgaris. Genetics 8:552–560Google Scholar
  58. Schwarz G, Sift A, Wenzel G, Mohler V (2003) DHPLC scoring of a SNP between promoter sequences of HMW glutenin x-type alleles at the Glu-D1 locus in wheat. J Agric Food Chem 51:4263–4267PubMedGoogle Scholar
  59. Seah S, Bariana H, Jahier JK, Sivasithamparam K, Lagudah ES (2001) The introgressed segment carrying rust resistance genes Yr17, Lr37 and Sr38 in wheat can be assayed by a cloned disease resistance gene-like sequence. Theor Appl Genet 102:600–605Google Scholar
  60. Sebolt AM, Shoemaker RC, Diers BW (2001) Analysis of a quantitative trait locus allele from wild soybean that increases seed protein concentration in soybean. Crop Sci 40:1438–1444Google Scholar
  61. Shen L, Courtois B, McNally KL, Robin S, Li Z (2001) Evaluation of near-isogenic lines of rice introgressed with QTLs for root depth through marker-aided selection. Theor Appl Genet 103:75–83Google Scholar
  62. Singh S, Sidhu JS, Huang N, Vikal Y, Li Z, Brar DS, Dhaliwal HS, Khush GS (2001) Pyramiding three bacterial blight resistance genes (xa5, xa13 and Xa21) using marker-assisted selection into indica rice cultivar PR106. Theor Appl Genet 102:1011–1015CrossRefGoogle Scholar
  63. Sorri VA, Watanabe KN, Valkonen JPT (1999) Predicted kinase-3a motif of a resistance genelike fragment as a unique marker for PVY resistance. Theor Appl Genet 99:164–170CrossRefGoogle Scholar
  64. Stoutjesdijk P, Kammholz SJ, Kleven S, Matsay S, Banks PM, Larkin PJ (2001) PCR-based molecular marker for the Bdv2 Thinopyrum intermedium source of barley yellow dwarf virus resistance in wheat. Aust J Agric Res 52:1383–1388CrossRefGoogle Scholar
  65. Stuber CW, Edwards MD, Wendel JF (1987) Molecular marker-facilitated investigations of quantitative trait loci in maize. II. Factors influencing yield and its component traits. Crop Sci 27:639–648Google Scholar
  66. Tabien RE, Li Z, Patterson AH, Marchetti MA, Stansel JW, Pinson SRM (2000) Mapping of four major rice bast resistance genes from Lemont and Teqint and evaluation of their combinatorial effect for field resistance. Theor Appl Genet 101:1215–1225CrossRefGoogle Scholar
  67. Tan YF, Sun M, Xing YZ, Hua JP, Sun XL, Zhang QF, Corke H (2001) Mapping quantitative trait loci for milling quality, protein content and color characteristics of rice using a recombinant inbred line population derived from an elite rice hybrid. Theor Appl Genet 103:1037–1045CrossRefGoogle Scholar
  68. Tanksley SD, Nelson JC (1996) Advanced backcross QTL analysis: a method for the simultaneous discovery and transfer of valuable QTLs from unadapted germplasm into elite breeding lines. Theor Appl Genet 92:191–203CrossRefGoogle Scholar
  69. Tanksley SD, Young ND, Paterson AH, Bonierbale MW (1989) RFLP mapping in plant breeding: new tools for an old science. Biotechnology 7:257–264CrossRefGoogle Scholar
  70. Toojinda T, Baird E, Booth A, Broers L, Hayes P, Powell W, Thomas W, Vivar H, Young G (1998) Introgression of quantitative trait loci (QTLs) determining stripe rust resistance in barley: an example of marker-assisted development. Theor Appl Genet 96:123–131CrossRefGoogle Scholar
  71. Ugozzoli L, Wallace RB (1991) Allele-specific polymerase chain reaction. Methods Enzymol 2:42–48CrossRefGoogle Scholar
  72. Van Berloo R, Stam P (1998) Marker assisted selection in autogamous RIL populations: a simulation study. Theor Appl Genet 96:147–154CrossRefGoogle Scholar
  73. Van Berloo R, Stam P (1999) Comparison between marker-assisted selection and phenotypical selection in a set of Arabidopsis thaliana recombinant inbred lines. Theor Appl Genet 98:113–118CrossRefGoogle Scholar
  74. Van Berloo R, Aalbers H, Werkman A, Niks RE (2001) Resistance QTL confirmed through development of QTL-NILs for barley leaf rust resistance. Mol Breed 8:187–195CrossRefGoogle Scholar
  75. Walker D, Boerma HR, All J, Parrott W (2002) Combining cry1Ac with QTL alleles from PI 229358 to improve soybean resistance to lepidopteran pests. Mol Breed 9:43–51CrossRefGoogle Scholar
  76. Wei F, Gobelman-Werner K, Morroll SM, Kurth J, Mao L, Wing R, Leister D, Schulze-Lefert P, Wise RP (1999) The Mla (powdery mildew) resistance cluster is associated with three NBSLRR gene families and suppressed recombination within a 240-kb DNA interval on chromosome 5S (1HS) of barley. Genetics 153:1929–1948PubMedGoogle Scholar
  77. Werner K, Pellio B, Ordon F, Friedt W (2000) Development of an STS marker and SSRs suitable for marker-assisted selection for the BaMMV resistance gene rym9 in barley. Plant Breed 119:517–519Google Scholar
  78. Willcox MC, Khairallah MM, Bergvinson D, Crossa J, Deutsch JA, Edmeades GO, González-de-León D, Jiang C, Jewell DC, Mihm JA, Williams WP, Hoisington D (2002) Selection for resistance to southwestern corn borer using marker-assisted and conventional backcrossing. Crop Sci 2002 42:1516–1528Google Scholar
  79. Yamamoto T, Lin H, Sasaki T, Yano M (2000) Identification of heading date quantitative trait locus Hd6 and characterization of its epistatic interactions with Hd2 in rice using advanced backcross progeny. Genetics 154:885–891PubMedGoogle Scholar
  80. Yousef GG, Juvik JA (2001) Comparison of phenotypic and marker-assisted selection for quantitative traits in sweet corn. Crop Sci 2001 41:645–655Google Scholar
  81. Yousef GG, Juvik JA (2002) Enhancement of seedling emergence in sweet corn by marker-assisted backcrossing of beneficial QTL. Crop Sci 42:96–104PubMedGoogle Scholar
  82. Zhou PH, Tan YF, He YQ, Xu CG, Zhang Q (2003) Simultaneous improvement for four quality traits of Zhenshan 97, an elite parent of hybrid rice, by molecular marker-assisted selection. Theor Appl Genet 106:326–331PubMedGoogle Scholar
  83. Zhou W-C, Kolb FL, Bai G-H, Domier LL, Boze LK, Smith NJ (2003) Validation of a major QTL for scab resistance with SSR markers and use of marker-assisted selection in wheat. Plant Breed 122:40–46CrossRefGoogle Scholar

Copyright information

© Springer-Verlag Berlin Heidelberg 2004

Authors and Affiliations

  • V. Mohler
  • C. Singrün
    • 1
  1. 1.Department of Plant Sciences, Center of Life and Food Sciences WeihenstephanTechnical University MunichFreising-WeihenstephanGermany

Personalised recommendations