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Microsatellites and Molecular Breeding: Exploitation of Microsatellite Variability for the Analysis of a Monotonous Genome

  • Chapter
Molecular Techniques in Crop Improvement

Abstract

Molecular markers and especially those based on selectively neutral DNA sequence polymorphisms have revolutionized the old art of plant breeding, They facilitate the reliable identification of clones, breeding lines, hybrids and cultivars, allow the monitoring of introgression of alien DNA into cultivated germplasm, and the estimation of genetic diversity in germplasm collections, Further, for nearly every important crop, advanced high-density DNA marker maps are now available that provide a basis for marker-assisted selection of agronomically useful traits, pyramiding of resistance genes, and the isolation of these and other important genes by map-based cloning, In future, molecular marker techniques clearly will gain more and more influence on plant breeding, and will speed up breeding processes considerably (see reviews by Tanksley et al, 1995, Winter and Kahl 1995).

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References

  • Ahmad, F., and Slinkard, A.E, (1992) Genetic relationships in the genus Cicer L as revealed by polyacrylamide gel electrophoresis of seed storage proteins, Theor Appl Genet 84, 688–692.

    Google Scholar 

  • Akagi, H., Yokozeki, Y, Inagaki, A., and Fujimura, T, (1997) Highly polymorphic microsatellites of rice consist of AT repeats, and classification of closely related cultivars with these microsatellite loci, Theor Appl Genet 94, 61–67.

    PubMed  CAS  Google Scholar 

  • Akkaya, M.S., Bhagwat, A.A, and Cregan, P.B, (1992), Length polymorphisms of simple sequence repeat DNA in soybean, Genetics 132, 1131–1139.

    PubMed  CAS  Google Scholar 

  • Akkaya, M.S., Shoemaker, R.C., Specht, J.E., Bhagwat, A.A, and Cregan, P.B, (1995), Integration of simple sequence repeat DNA markers into a soybean linkage map, Crop Sci 35, 1439–1445.

    CAS  Google Scholar 

  • Ali, S., Müller C.R, and Epplen, J.T, (1986) DNA fingerprinting by oligonucleotide probes specific for simple repeats, Hum Genet 74, 239–243.

    PubMed  CAS  Google Scholar 

  • Arens, P., Odinot, P., Van Heusden, A.W., Lindhout, P, and Vosman, B, (1995) GATA- and GACA-repeats are not evenly distributed throughout the tomato genome, Genome 38, 84–90.

    PubMed  CAS  Google Scholar 

  • Areshchenkova, T, and Ganal, M.W, (1999) Long tomato microsatellites are predominantly associated with centromeric regions, Genome 42, 536–544.

    PubMed  CAS  Google Scholar 

  • Armour, J.A.L., Neumann, R., Gobert, S, and Jeffreys, A.J, (1994) Isolation of human simple repeat loci by hybridization selection, Hum, Mol, Genet, 3, 599–605.

    CAS  Google Scholar 

  • Becher, S.A., Steinmetz, K., Weising, K., Boury, S., Peltier, D., Renou, J.P., Kahl, G, and Wolff, K, (2000) Microsatellites for cultivar identification in Pelargonium, Theor, Appl, Genet., in press.

    Google Scholar 

  • Becker, J, and Heun, M, (1995a) Barley microsatellites: allele variation and mapping, Plant Mol Biol 27 835–845.

    PubMed  CAS  Google Scholar 

  • Becker, J, and Heun, M, (1995b) Mapping of digested and undigested random amplified microsatellite polymorphisms in barley, Genome 38, 991–998.

    PubMed  CAS  Google Scholar 

  • Beckmann, J.S, and Soller, M, (1990) Toward a unified approach to genetic mapping of eukaryotes based on sequence tagged microsatellite sites, Bio/Technology 8, 930–932.

    PubMed  CAS  Google Scholar 

  • Bell, C.J, and Ecker, J.R, (1994) Assignment of 30 microsatellite loci to the linkage map of Arabidopsis, Genomics 19, 137–144.

    PubMed  CAS  Google Scholar 

  • Botstein, D., White, R.L., Skolnik, M, and Davis, R.W, (1980) Construction of a genetic linkage map in man using restriction fragment length polymorphisms, Am, J, Hum, Genet, 32, 314–331.

    CAS  Google Scholar 

  • Brachet, S., Jubier, M.F., Richard, M., Jung-Muller, B, and Frascaria-Lacoste, N, (1999) Rapid identification of microsatellite loci using 5’ anchored PCR in the common ash Fraxinus excelsior, Mol, Eco I, 8, 160–163.

    CAS  Google Scholar 

  • Brandes, A, Thompson, H., Dean, C, and Heslop-Harison, J.S, (1997) Multiple repetitive sequences in the paracentromeric regions of Arabidopsis thaliana L, Chromosome Res, 5, 238–246.

    PubMed  CAS  Google Scholar 

  • Brinkmann, B., Klintschar, M., Neuhuber, F., Huhne, J, and Rolf B, (1998) Mutation rate in human microsatellites: influence of the structure and length of the tandem repeat, Am, J, Hum, Genet, 62, 1408–1415.

    CAS  Google Scholar 

  • Broun, P, and Tanksley, S.D, (1993) Characterization of tomato clones with sequence similarity to human minisatellites 33.6 and 33.15, Plant Mol, Biol, 23, 231–242.

    CAS  Google Scholar 

  • Broun, P, and Tanksley, S.D, (1996) Characterization and genetic mapping of simple repeat sequences in the tomato genome, Mol, Gen, Genet, 250, 39–49.

    CAS  Google Scholar 

  • Bryan, G.J., Collins, A.J., Stephenson, P., Orry, A., Smith, J.B, and Gale, M.D, (1997) Isolation and characterization of microsatellites from hexaploid bread wheat, Theor, Appl, Genet, 94, 557–563.

    CAS  Google Scholar 

  • Bryan, G.J., McNicoll, J., Ramsey, G., Meyer, R.C, and De Jong, W.S, (1999) Polymorphic simple sequence repeat markers in chloroplast genomes of Solanaceous plants, Theor, Appl, Genet, 99, 859–867.

    CAS  Google Scholar 

  • Caetano-Anollés, G., Bassam, B.J, and Gresshoff, P.M, (1991) DNA amplification fingerprinting: a strategy for genome analysis, Plant Mol, Biol, Rep, 9, 292–305.

    Google Scholar 

  • Chakraborty, R., Kimmel, M., Strivers, D.N., Davison, L.J, and Deka, R, (1997) Relative mutation rates at di-tri- and tetranucleotide microsatellite loci, Proc, Natl, Acad, Sci, USA 94, 1041–1046.

    CAS  Google Scholar 

  • Chase, M., Kesseli, R, and Bawa, K, (1996) Microsatellite markers for population and conservation genetics of tropical trees, Am, J, Bot, 83, 51–57.

    Google Scholar 

  • Chen, X.S., Temnykh, Y., Xu, Y., Cho, Y.G, and McCouch, S.R, (1997) Development of a microsatellite map providing genome-wide coverage in rice (Oryza sativa L.) Theor, Appl, Genet, 95, 553–567.

    CAS  Google Scholar 

  • Chin, E.C.L, Senior, M.L., Shu, H, and Smith, J.S.C, (1996) Maize simple repetitive DNA sequences: abundance and allele variation, Genome 39, 866–873.

    PubMed  CAS  Google Scholar 

  • Cho, R.J, et al, (1999) Genome-wide mapping with biallelic markers in Arabidopsis thaliana, Nature Genetics 23, 203–207.

    PubMed  CAS  Google Scholar 

  • Cho, Y.G., Ishii, T., Temnykh, S., Chen, X., Lipovich, L., McCouch, S.R., Park, W.D., Ayres, N, and Cartinhour, S, (2000) Diversity of microsatellites derived from genomic libraries and GeneBank sequences in rice (Oryza sativa L.), Theo.r Appl., Genet 100, 713–722.

    CAS  Google Scholar 

  • Choumane, W., Winter, P., Weignd, F, and Kahl, G, (2000) Conservation and variability of sequence tegged microsatellite sites from chickpea (Cicer arietinum L.) within the genus Cicer, Theor, Appl, Genet, 101, 269–278.

    CAS  Google Scholar 

  • Cifarelli, R.A., Gallitelli, M, and Cellini, F, (1995) Random amplified hybridization microsatellites (RAHM): isolation of a new class of microsatellite-containing DNA clones, Nucleic Acids Res, 23, 3802–3803.

    PubMed  CAS  Google Scholar 

  • Cipriani, G., Lot, G., Huang, W.-G., Marrazzo, M.T., Peterlunger, E, and Testoli, R, (1999) AC/GT and AG/CT microsatellite repeats in peach [Prunus persica (L) Batsch]: isolation characterization and cross-species amplification in Prunus, Theor, Appl, Genet, 99, 65–72.

    CAS  Google Scholar 

  • Connel, J.P., Pammi, S., Iqbal, M.J., Huizinga, T, and Reddy, A.S, (1998) A high-throughput procedure for capturing microsatellites from complex genomes, Plant Mol, Biol, Rep, 16, 341–349.

    Google Scholar 

  • Cordeiro, G.M., Maguire, T.L., Edwards, K.J, and Henry, R.J, (1999) Optimisation of a microsatellite enrichment technique in Saccharum spp, Plant Mol, Biol, Rep, 17, 225–229.

    CAS  Google Scholar 

  • Cregan, P.B., Jarvik, T., Bush, A.L., Shoemaker, R.C., Lark, K.G., Kahler, A.L, Kaya, N., VanThoai, T.T., Lohnes, D.G., Chung, J, and Specht, J, (1999a) An integrated genetic linkage map of the soybean genome, Crop Sci, 39, 211–217.

    Google Scholar 

  • Cregan, P.B., Mudge, J., Fickus, E.W., Marek, L.F., Danesh, D., Denny, R., Shoemaker, R.C., Mathews, B.F., Jarvik, T, and Young, N.D, (1999b) Targeted isolation of simple sequence repeat markers through the use of bacterial artificial chromosomes, Theor, Appl, Genet, 98, 919–928.

    CAS  Google Scholar 

  • Davila, J.A., Loarce, Y, and Ferrer, E, (1999) Molecular characterization and genetic mapping of random amplified microsatellite polymorphism in barley, Theor, Appl, Genet, 98, 265–273.

    CAS  Google Scholar 

  • Dayanandan, S., Bawa, K.S, and Kesseli, R, (1997) Conservation of microsatellites among tropical trees, Am, J, Bot, 84, 1658–1663.

    CAS  Google Scholar 

  • Deka, R., Shriver, M.D., Yu, L.M., Aston, C.E., Chakraborty, R, and Ferrell, R.E, (1994) Conservation of human chromosome 13 polymorphic microsatellite (CA)„ repeats in chimpanzees, Genomics 22, 226–230.

    PubMed  CAS  Google Scholar 

  • Delseny, M., Cooke, R., Raynal, M, and Grellet, F, (1997) The Arabidopsis thaliana cDNA sequencing projects, FEBS Lett, 405, 129–132.

    PubMed  CAS  Google Scholar 

  • Depeiges, A., Goubely, C., Lenoir, A., Cocherel, S., Picard, G., Raynal, M., Grellet, F, and Delseny, M, (1995) Identification of the most represented repeated motifs in Arabidopsis thaliana microsatellite loci, Theor, Appl, Genet, 91, 160–168.

    CAS  Google Scholar 

  • Dib, C., Fauré, S., Fizames, C., Samson, D., Drouot, N., Vignal, A., Millasseau, P., Marc, S., Hazan, J, Seboun, E., Lathrop, M., Gyapay, G., Morissette, J, and Weissenbach, J, (1996) A comprehensive genetic map of the human genome based on 5,264 microsatellites, Nature 380, 152–154.

    PubMed  CAS  Google Scholar 

  • Dietrich, W.F., Miller, J., Steen, R., Merchant, M.A., Damron-Boles, D., Husain, Z., Dredge, R., Daly, M., Ingalls, K.A., O’Connor, T.J., Evans, C.A., DeAngelis, M.M., Levinson, D.M., Kruglyak, L., Goodman, N., Copeland, N.G., Jenkins, N.A., Hawkins, T.L., Stein, L., Page, D.C, and Lander, E.S, (1996) A comprehensive genetic map of the mouse genome, Nature 380. 149–152.

    PubMed  CAS  Google Scholar 

  • Dirlewanger, E., Isaac, P.G., Ranade, S., Belajouza, M., Cousin, R, and De Vienne, D, (1994) Restriction fragment length polymorphism analysis of loci associated with disease resistance genes and developmental traits in Pisum sativum L, Theor, Appt, Genet, 88, 17–27.

    CAS  Google Scholar 

  • Diwan, N, and Cregan, P.B, (1997) Automated sizing of fluorescent-labelled simple sequence repeat (SSR) markers to assay genetic variation in soybean, Theor, Appl, Genet, 95, 723–733.

    CAS  Google Scholar 

  • Diwan, N., Bhagwat, A.A., Bauchan, G.B, and Cregan, P.B, (1997) Simple sequence repeat DNA markers in alfalfa and perennial and annual Medicago species, Genome 40, 887–895.

    PubMed  CAS  Google Scholar 

  • Don, R.H., Cox, P.T., Wainwright, K., Baker, K, and Mattock, J.S, (1991) “Touchdown” PCR to circumvent spurious priming during gene amplification, Nucl Acids Res, 19, 4008.

    CAS  Google Scholar 

  • Donini, P., Stephenson, P., Bryan, G.J, and Koebner, R.M.D, (1998) The potential of microsatellites for high-throughput genetic diversity assessment in wheat and barley, Genet Resources Crop, Evol, 45, 415–421.

    Google Scholar 

  • Doyle, J.J., Morgante, M., Tingey, S.V, and Powell, W, (1998) Size homoplasy in chloroplast microsatellites of wild perennial relatives of soybean (Glycine subgenus Glycine), Mol, Biol, Evol, 15, 215–218.

    CAS  Google Scholar 

  • Echt, C.S, and May-Marquardt, P, (1997) Survey of microsatellite DNA in pine, Genome 40, 9–17.

    PubMed  CAS  Google Scholar 

  • Echt, C.S., DeVerno, L.L., Anzidei, M, and Vendramin, G.G, (1998) Chloroplast microsatellites reveal population genetic diversity in red pine, Pinus resinosa Ait, Mol, Ecol, 7, 307–316.

    Google Scholar 

  • Edwards, A., Civitello, A., Hammond, H.A, and Caskey, C.T, (1991) DNA typing and genetic mapping with trimeric and tetrameric tandem repeats, Am, J, Hum, Genet, 49, 746–756.

    CAS  Google Scholar 

  • Edwards, K.J., Barker, J.H.A., Daly, A., Jones, C, and Karp, A, (1996) Microsatellite libraries enriched for several microsatellite sequences in plants, BioTechniques 20, 758–760.

    PubMed  CAS  Google Scholar 

  • Ender, A., Schwenk, K., Städler, T., Streit, B, and Schierwater, B, (1996) RAPD identification of microsatellites in Daphnia, Mol, Ecol, 5, 437–441.

    CAS  Google Scholar 

  • Epplen, J.T, (1992) The methodology of multilocus DNA fingerprinting using radioactive or nonradioactive probes specific for simple repeat motifs, In: Chrambach, A, Dunn M, Radola BJ (eds.), Advances in Electrophoresis, Vol. 5, VCH, Weinheim, Germany, pp 59–112.

    Google Scholar 

  • Epplen, J.T., Mäueler, W, and Santos, E.J.M, (1998) On GATAGATA and other “junk” in the barren stretch of genomic desert, Cytogenet, Cell Genet, 80, 75–82.

    CAS  Google Scholar 

  • Fischer, D, and Bachmann.K, (1998) Microsatellite enrichment in organisms with large genomes (Allium cepa L.) Biotechniques 24, 796–798.

    PubMed  CAS  Google Scholar 

  • Fisher, P.J., Gardner, R.C, and Richardson, I.E, (1996) Single locus microsatellites isolated using 5’anchored PCR, Nucl Acids Res, 24, 4369–4372.

    PubMed  CAS  Google Scholar 

  • FitzSimmons, N.N., Moritz, C, and Moore, S.S, (1995) Conservation and dynamics of microsatellite loci over 300 million years of marine turtle evolution, Mol, Biol, Evol, 12, 432–440.

    CAS  Google Scholar 

  • Forbes, S.H., Hogg, J.T., Buchanan, F.C., Crawford, A.M, and Allendorf, F.W, (1995) Microsatellite evolution in congeneric mammals: domestic and bighorn sheep, Mol, Biol, Evol, 12, 1 106–1 1 13.

    Google Scholar 

  • Garza, J.C., Slatkin, M, and Freimer, N.B, (1995) Microsatellite allele frequencies in humans and chimpanzees, with implications for constraints on allele size, Mol, Biol, Evol, 12, 594–603.

    CAS  Google Scholar 

  • Gaur, P.M, and Slinkard, A.E, (1990) Genetic control and linkage relations of additional isozyme markers in chickpea, Theor, Appl, Genet, 80, 648–656.

    CAS  Google Scholar 

  • Geistlinger, J., Weising, K., Winter, P., and Kahl, G, (2000) Locus-specific microsatellite markers for the fungal chickpea pathogen Didymella rabiei (anamorph) Ascochyta rabiei, Mol, Ecol, 9, 1939–1941

    CAS  Google Scholar 

  • Gortner, G., Nenno, M., Weising, K., Zink, D., Nagl, W, and Kahl, G, (1998) Chromosomal localization and distribution of simple sequence repeats and the Arabidopsis-type telomere sequence in the genome of Cicer arietinum L, Chrom, Res, 6, 97–104.

    CAS  Google Scholar 

  • Gupta, M., Chyi, Y.-S., Romero-Severson, J, and Owen, J.L, (1994) Amplification of DNA markers from evolutionary diverse genomes using single primers of simple-sequence repeats, Theor, Appl, Genet, 89, 998–1006.

    CAS  Google Scholar 

  • Gupta, P.K, and Varshney, R.K, (2000) The development and use of microsatellite markers for genetic analysis and plant breeding with emphasis on bread wheat, Euphytica 113, 163–185.

    CAS  Google Scholar 

  • Hamada, H., Seidman, M., Howard, B.H, and Gorman, C.M, (1984) Enhanced gene expression by the poly (dT-dG poly (dC-dA) sequence, Mol, Cell, Biol, 4, 2622–2630.

    CAS  Google Scholar 

  • Hamilton, M.B., Pincus, E.L., Di Fiore, A, and Fleischer, R.C, (1999) Universal linker and ligation procedures for construction of genomic DNA libraries enriched for microsatellites, BioTechniques 27, 500–507.

    PubMed  CAS  Google Scholar 

  • Harr, B., Zangerl, B., Brem, G, and Schlötterer, C, (1998) Conservation of locus-specific microsatellite variability across species: a comparison of two Drosophila sibling species, D, melanogaster and D, simulans, Mol, Biol, Evol, 15, 176–184.

    CAS  Google Scholar 

  • Hauge, X.Y, and Litt, M, (1993) A study of the origin of “shadow bands” seen when typing dinucleotide repeat polymorphisms by the PCR, Hum, Mol, Genet, 2, 411–415.

    CAS  Google Scholar 

  • Hearne, C.M., McAleer, M.A., Love, J.M., Altman, J., Cornall, R.J., Gosh, S., Knight, A.M., Prins, J.-B, and Todd, J.A, (1991) Additional microsatellite markers for mouse genome mapping, Mamm, Genome 1, 273–282.

    CAS  Google Scholar 

  • Hoogendorn, B, et al, (1999) Genotyping single polymorphisms by primer extension and high performance liquid chromatography, Hum, Genet, 104, 89–93.

    Google Scholar 

  • Huang, W.-G., Cipriana, G., Morgante, M, and Testolin, R, (1998) Microsatellite DNA in Actinidia chinensis: isolation, characterization and homology in related species, Theor, Appl, Genet, 97: 1269–1278.

    CAS  Google Scholar 

  • Huang, J.C, and Sun, M, (2000) Genetic diversity and relationships of sweetpotato and its wild relatives in Ipomoea series Batatas (Convolvulaceae) as revealed by inter-simple sequence repeat (ISSR) and restriction analysis of chloroplast DNA, Theor, Appl, Genet, 100, 1050–1060.

    CAS  Google Scholar 

  • Mittel, B, (1996) Mikrosatelliten als molekulare Marker in der Kichererbse (Cicer arietinum L.) Ph.D, Thesis, University of Frankfurt, Germany

    Google Scholar 

  • Hüttel, B., Winter, P., Weising, K., Choumane, W., Weigand, F, and Kahl, G, (1999) Sequence-tagged microsatellite site markers for chickpea (Cicer arietinum L.), Genome 42, 210–217.

    PubMed  Google Scholar 

  • Ishii, T, and McCouch, S.R, (2000) Microsatellites and microsynteny in the chloroplast genomes of Oryza and eight other Gramineae species, Theor, Appl, Genet, 100, 1257–1266.

    CAS  Google Scholar 

  • Ito, T., Smith, C.L, and Cantor, C.R, (1992) Sequence-specific DNA purification by triplex affinity capture, Proc, Natl, Acad, Sc.i USA 89, 495–498.

    CAS  Google Scholar 

  • Jacob, H.J., Brown, D.M., Bunker, R.K., Daly, M.J., Dzau, V.J., Goodman, A., Koike, G., Kren, V., Kurtz, T., Lernmark, A., Levan, G., Mao, Y., Pettersson, A., Pravenec, M., Simon, J.S., Szpirer, C., Szpirer, J., Trolliet, M.R., Winer, E.S, and Lander, E.S, (1995) A genetic linkage map of the laboratory rat, Rattus norvegicus, Nature Genet, 9, 63–69.

    PubMed  CAS  Google Scholar 

  • Jin, L., Macaubas, C., Hallmayer, J., Kimura, A, and Mignot, E, (1996) Mutation rate varies among alleles at a microsatellite locus: phylogenetic evidence, Proc, Natl, Acad, Sci, USA 93, 15285–15288.

    CAS  Google Scholar 

  • Kaemmer, D, Afza, R., Weising, K., Kahl, G, and Novak, F.J, (1992) Oligonucleotide and amplification fingerprinting of wild species and cultivars of banana (Musa spp.), Bio/Technology 10, 1030–1035.

    PubMed  CAS  Google Scholar 

  • Kaemmer, D., Fischer, D., Jarret, R.L., Baurens, F.C., Grapin, A., Dambier, D., Noyer, J.L., Lannaud, C., Kahl, G., and Lagoda, P.J.L, (1997) Molecular breeding in the genus Musa: a strong case for STMS marker technology, Euphytica 96, 49–63.

    CAS  Google Scholar 

  • Kalendar, R., Grob, T., Regina, M., Suoniemi, A, and Schulman, A, (1999) TRAP and REMAP: two new retrotransposon-based DNA fingerprinting techniques, Theor, Appl, Genet, 98, 705–711.

    Google Scholar 

  • Kandpal, R.P., Kandpal, G, and Weissman, S.M, (1994) Construction of libraries enriched for sequence repeats and jumping clones, and hybridization selection for region-specific markers, Proc, Natl, Acad, Sci, USA 91, 88–92.

    CAS  Google Scholar 

  • Kantety, R.V., Zeng, X., Bennetzen, J.L, and Zehr, B.E, (1995) Assessment of genetic diversity in dent and popcorn (Zea mays L.) inbred lines using inter-simple sequence repeat (ISSR) amplification, Mol, Breeding 1, 365–373.

    CAS  Google Scholar 

  • Karagyozov, L., Kalcheva, I.D, and Chapman, V.M, (1993) Construction of random small-insert genomic libraries highly enriched for simple sequence repeats, Nucleic Acids Res, 21, 3911–3912.

    PubMed  CAS  Google Scholar 

  • Karhu, A., Dieterich, J.H, and Savolainen, O, (2000) Rapid expansion of microsatellite sequences in pines, Mol, Biol, Evol, 17, 259–265.

    CAS  Google Scholar 

  • Kashi, Y., Nave, A., Darvasi, A., Gruenbaum, Y., Soller, M, and Beckmann, J.S, (1994) How is it that microsatellites and random oligonucleotides uncover DNA fingerprint patterns? Mamm, Genome, 5, 525–530.

    CAS  Google Scholar 

  • Kashi, Y., King, D, and Soller, M, (1997) Simple sequence repeats as a source of quantitative genetic variation, Trends Genet, 13, 74–78.

    PubMed  CAS  Google Scholar 

  • Kazan, K, and Muehlbauer, F.J, (1991) Allozyme variation and phylogeny in annual species of Cicer (Leguminosae), PI, Syst, Evol, 175, 11–21.

    CAS  Google Scholar 

  • Kazan, K., Muehlbauer, F.J., Weeden, N.F, and Ladizinsky, G, (1993) Inheritance and linkage relationships of morphological and isozyme loci in chickpea (Cicer arietinum L.), Theor, Appl, Genet, 86, 417–426.

    CAS  Google Scholar 

  • Kijas, J.M.H., Fowler, J.C.S., Garbett, C.A..and Thomas, M.R, (1994) Enrichment of microsatellites from the Citrus genome using biotinylated oligonucleotide sequences bound to streptavidin-coated magnetic particles, BioTechniques 16, 658–662.

    Google Scholar 

  • Kijas, J.M.H., Fowler, J.C.S, and Thomas, M.R, (1995), An evaluation of sequence tagged microsatellite site markers for genetic analysis within Citrus and related species, Genome 38, 349–355.

    PubMed  CAS  Google Scholar 

  • Kijas, J.M.H., Thomas, M.R., Fowler, J.C.S, and Roose, M.L, (1997) Integration of trinucleotide microsatellites into a linkage map of Citrus, Theor, Appl, Genet, 94, 701–706.

    CAS  Google Scholar 

  • Klinkicht, M, and Tautz, D, (1992) Detection of simple sequence length polymorphisms by silver staining, Mol, Ecol, 1, 133–134.

    CAS  Google Scholar 

  • Koblizkova, A., Dolezel, J, and Macas, J, (1998) Subtraction with 3’modified oligonucleotides eliminates amplification artifacts in libraries enriched for microsatellites, BioTechniques 25, 32–38.

    PubMed  CAS  Google Scholar 

  • Kojima, T., Nagaoka, T., Noda, K, and Ogihara, Y, (1998) Genetic linkage map of ISSR and RAPD markers in Einkorn wheat in relation to that of RFLP markers, Theor, Appl, Genet, 96, 37–45.

    CAS  Google Scholar 

  • Kondo, Y., Sato, K., Kitada, K, and Serikawa, T, (1997) Application of mouse microsatellite markers to rat genome mapping, Transplantation Proc, 29, 1766–1767.

    CAS  Google Scholar 

  • Korzun, V., Röder, M.S., Wendehake, K., Pasqualone, A., Lotti, C., Ganal, M.W, and Blanco, A, (1999) Integration of dinucleotide microsatellites from hexaploid bread wheat into a genetic linkage map of durum wheat, Theor, Appl, Genet, 98, 1202–1207.

    CAS  Google Scholar 

  • Kresovich, S., Szewc-McFadden, A.K., Bliek, S.M, and McFerson, J.R, (1995) Abundance and characterization of simple-sequence repeats (SSRs) isolated from a size-fractionated genomic library of Brassica napus L, (rapeseed), Theor, Appl, Genet, 91, 206–211.

    CAS  Google Scholar 

  • Kristensen, V.N, and Borresen-Dale, A.-L, (1997) Improved electrophoretic separation of polymorphic short tandem repeats in agarose gels using bis-Benzimide, BioTechniques 23, 634–636.

    PubMed  CAS  Google Scholar 

  • Labdi, M., Robertson, L.D., Singh, K.B, and Charrier, A, (1996) Genetic diversity and phylogenetic relationships among the annual Cicer species as revealed by isozyme polymorphisms, Euphytica 88, 181–188.

    CAS  Google Scholar 

  • Lagercrantz, U., Ellegren, H, and Andersson, L, (1993), The abundance of various polymorphic microsatellite motifs differs between plants and vertebrates, Nucleic Acids Res, 21, 1111–1115.

    PubMed  CAS  Google Scholar 

  • Lench, N.J., Norris, A., Bailey, A., Booth, A, and Markham, A.F, (1996) Vectorette PCR isolation of microsatellite repeat sequences using anchored dinucleotid repeat primers, Nucleic Acids Res, 24, 2190–2192.

    PubMed  CAS  Google Scholar 

  • Levinson, G, and Gutman, G.A, (1987) Slipped-strand mispairing: a major mechanism for DNA sequence evolution, Mol, Biol, Evol, 4, 203–221.

    CAS  Google Scholar 

  • Li, Y.-C., Räder, M.S., Fahima, T., Kirzhner, V.M., Beiles, A., Korol, A.B, and Neva, E, (2000) Natural selection causing MS diversity in wild emmer wheat at the ecologically variable microsite Ammiad, Israel, Theor, Appl, Genet, 100, 985–999.

    Google Scholar 

  • Liu, L.W., Biyashev, R.M, and Saghai-Maroof, M.A, (1996) Development of simple sequence repeat DNA markers and their integration into a barley linkage map, Theor, Appl, Genet, 93, 869–876.

    CAS  Google Scholar 

  • Litt, M, and Luty, J.A, (1989) A hypervariable microsatellite revealed by in vitro amplification of a dinucleotide repeat within the cardiac muscle actin gene, Am, J, Hum, Genet, 44, 397–401.

    CAS  Google Scholar 

  • Lorieux, M., Ndjondjop, M.N, and Ghesquière, A, (2000) A first interspecific Oryza sativa X Oryza glaberrima microsatellite-based genetic linkage map, Theor, Appl, Genet, 100, 593–601.

    CAS  Google Scholar 

  • Lu, J., Knox, M.R., Ambrose, M.J., Brown, J.K.M, and Ellis, T.H.N, (1996) Comparative analysis of genetic diversity in pea assessed by RFLP- and PCR-based methods, “I’heor, Appl, Genet, 93, 1103–1111.

    CAS  Google Scholar 

  • Manninen, I, and Schulmann, A.H, (1993) BARE1, a copia-like retroelement in barley (Hordeum vulgare L.), Plant Mol, Biol, 22, 829–846.

    CAS  Google Scholar 

  • Mäueler, W., Bassili, G., Arnold, R., Renkawitz, R, and Epplen, J.T, (1999) The (gt)n(ga)m containing intron 2 of HLA-DRB alleles binds a zinc-dependent protein and forms non B-DNA structures, Gene 226, 9–23.

    PubMed  Google Scholar 

  • Marek, L.F, and Shoemaker, R.C, (1997) BAC contig development by fingerprint analysis in soybean, Genome 40, 429–427.

    Google Scholar 

  • McCouch, S.R., Chen, X., Panaud, O., Temnykh, S., Xu, Y., Cho, Y.G., Huang, N., Ishii, T, and Blair, M, (1997) Microsatellite marker development, mapping and application in rice breeding, Plant Mol, Biol, 35, 89–99.

    CAS  Google Scholar 

  • McMurray CT (1995) Mechanisms of DNA expansion, Chromosoma 104, 2–13.

    PubMed  CAS  Google Scholar 

  • Meloni, R., Albanese, V., Ravassard, P., Treilhou, F, and Mallet, J, (1998) A tetranucleotide polymorphic microsatellite, located in the first intron of the tyrosine hydroxylase gene, acts as a transcription regulatory element in vitro, Hum, Mol, Genet, 7, 423–428.

    CAS  Google Scholar 

  • Meyer, W., Mitchell, T.G., Freedman, E.Z, and Vilgalys, R, (1993) Hybridization probes for conventional DNA fingerprinting used as single primers in the polymerase chain reaction to distinguish strains of Cryptococcus neoformans, J, Clin, Microbiol, 31, 2274–2280.

    CAS  Google Scholar 

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

    CAS  Google Scholar 

  • Milbourne, D., Meyer, R.C., Collins, A.J., Ramsey, L.D., Gebhardt, C, and Waugh, R, (1998) Isolation, characterization and mapping of simple sequence repeat loci in potato, Mol, Gen, Genet, 259, 233–245.

    CAS  Google Scholar 

  • Miller, J.C, and Tanksley, S.D, (1990) RFLP analysis of phylogenetic relationships and genetic variation in the genus Lycopersicon, Theor, Appl, Genet, 80, 437–448.

    CAS  Google Scholar 

  • Mitchell, S.E., Kresovich, S., Jester, C.A., Hernandez, C.J, and Szewcz-McFadden, A.K, (1997) Application of multiplex PCR and fluorescence-based, semi-automated allele sizing technology for genotyping plant resources, Crop Sci, 37, 617–624.

    CAS  Google Scholar 

  • Mörchen, M., Cuguen, J., Michaelis, G., Hänni, C, and Saumitou-Laprade, P, (1996) Abundance and length polymorphism of microsatellite repeats in Beta vulgaris L, Theor, Appl, Genet, 92, 326–333.

    Google Scholar 

  • Moore, S.S., Sargeant, L.L., King, T.J., Mattick, J.S., Georges, M, and Hetzel, D.J.S, (1991) The conservation of dinucleotide microsatellites among mammalian genomes allows the use of heterologous PCR primer pairs in closely related species, Genomics 10, 654–660.

    PubMed  CAS  Google Scholar 

  • Morgante, M, and Olivieri, A.M, (1993) PCR-amplified microsatellites as markers in plant genetics, Plant J, 3, 175–182.

    PubMed  CAS  Google Scholar 

  • Morgante, M., Rafalski, A., Biddle, P., Tingey, S, and Olivieri, A.M, (1994) Genetic mapping and variability of seven soybean simple sequence repeat loci, Genome 37, 763–769.

    PubMed  CAS  Google Scholar 

  • Nadir, E., Margalit, H., Gallily, T, and Ben-Sasson, S.A, (1996) Microsatellite spreading in the human genome: Evolutionary mechanisms and structural implications, Proc, Natl, Acad, Sci, USA 93, 6470–6475.

    CAS  Google Scholar 

  • Nakamura, Y., Leppert, M., O’Connel, P., Wolff, R., Holm, T., Culver, M., Martin, C., Fujimoto, E., Hoff, M., Kumlin, E, and White, R, (1987) Variable number of tandem repeat (VNTR) markers for human gene mapping, Science 235, 516–522.

    Google Scholar 

  • Nanda, I., Feichtinger, W., Schmid, W., Schröder, J.H., Zischler, H, and Epplen, J.T, (1990) Simple repetitive sequences are associated with the differentiation of the sex chromosomes in the guppy fish, J, Mol, Evol, 30, 456–462.

    CAS  Google Scholar 

  • Narvel, J.M., Chu, W.-C., Fehr, W.R., Cregan, P.B, and Shoemaker, R.C, (2000) Development of multiple sets of simple sequence repeat DNA markers covering the soybean genome, Mol, Breeding 6, 175–183.

    CAS  Google Scholar 

  • Neilan, B.A., Leigh, D.A., Rapley, E, and McDonald, B.L, (1994) Microsatellite genome screening: rapid non-denaturing, non-isotopic dinucleotide repeat analysis, BioTechniques 17, 708–712.

    PubMed  CAS  Google Scholar 

  • Neu, C., Kaemmer, D., Kahl, G., Fischer, D, and Weising, K, (1999) Polymorphic microsatellite markers for the banana pathogen Mycosphaerella fijiensis, Mol, Ecol, 8, 513–525.

    Google Scholar 

  • Orti, G., Pearse, D.E, and Avise, J.C, (1997) Phylogenetic assessment of length variation at a microsatellite locus, Proc, Natl, Acad, Sci, USA 94, 10745–10749.

    CAS  Google Scholar 

  • Ostrander, E.A., Jong, P.M., Rine, J, and Duyk, G, (1992) Construction of small-insert genomic DNA libraries highly enriched for microsatellite repeat sequences, Proc, Natl, Acad, Sci, USA 89, 3419–3423.

    CAS  Google Scholar 

  • Prevost, A, and Wilkinson, M.J, (1999) A new system of comparing PCR primers applied to ISSR fingerprinting of potato cultivars, Theor, Appl, Genet, 98, 107–112.

    CAS  Google Scholar 

  • Paglia, G.P., Oliveri, A.M, and Morgante, M, (1998) Towards second-generation STS (sequence-tagged sites) linkage maps in conifers: a genetic map of Norway spruce (Picea abies K.), Mol, Gen.Genet, 258, 466–478.

    CAS  Google Scholar 

  • Panaud, O., Chen, X, and McCouch, S.R, (1995) Frequency of microsatellite sequences in rice (Oryza sativa L.), Genome 38, 1170–1176.

    PubMed  CAS  Google Scholar 

  • Parasnis, A.S., Ramakrishna, W., Chowdari, K.V., Gupta, V.S, and Ranjekar, P.K, (1999) Microsatellite (GATA), reveals sex-specific differences in Papaya, Theor, Appl, Genet, 99, 1047–1052.

    CAS  Google Scholar 

  • Peakall, R., Gilmore, S., Keys, W., Morgante, M, and Rafalski, A, (1998) Cross-species amplification of soybean (Glycine max) simple sequence repeats (SSRs) within the genus and other legume genera: implications for the transferability of SSRs in plants, Mol, Biol, Evol, 15, 1275–1287.

    CAS  Google Scholar 

  • Pépin, L, Amigues, Y., Lépingle, A., Berthier, J.-L., Bensaid, A, and Vaiman, D, (1995) Sequence conservation of microsatellites between Bos taurus (cattle), Capra hircus (goat) and related species, Examples of use in parentage testing and phylogeny analysis, Heredity 74, 5361.

    Google Scholar 

  • Pfeiffer, A., Olivieri, A.M, and Morgante, M, (1997) Identification and characterization of microsatellites in Norway spruce (Picea abies K.), Genome 40, 411–419.

    PubMed  CAS  Google Scholar 

  • Phan, J., Reue, K, and Peterlÿ, M, (2000) MS-IRS PCR: a simple method for the isolation of microsatellites, BioTechniques 28, 18–20.

    PubMed  CAS  Google Scholar 

  • Powell, W., Morgante, M., McDevitt, R., Vendramin, G.G, and Rafalski, J.A, (1995a) Polymorphic simple sequence repeat regions in chloroplast genomes: Applications to the population genetics of pines, Proc, Natl, Acad, Sci, USA 92, 7759–7763.

    CAS  Google Scholar 

  • Powell, W., Morgante, M., Andre, C., McNicol, J.W., Machray, G.C., Doyle, J.J., Tingey, S.V, and Rafalski, J.A, (1995b) Hypervariable microsatellites provide a general source of polymorphic DNA markers for the chloroplast genome, Curr, Biol, 5, 1023–1029.

    CAS  Google Scholar 

  • Powell, W., Machray, G.C, and Provan, J, (1996) Polymorphism revealed by simple sequence repeats, Trends Plant Sci, 1, 215–222.

    Google Scholar 

  • Räder, M.S., Korzun, V., Wendehake, K., Plaschke, J., Tixer, M.H., Leroy, P, and Ganal, M.W, (1998) A microsatellite map of wheat, Genetics 149, 2007–2023.

    Google Scholar 

  • Primmer, C.R., Möller, A.P, and Ellegren, H, (1996) A wide-range survey of cross-species microsatellite amplification in birds, Mol, Ecol, 5, 365–378.

    CAS  Google Scholar 

  • Primmer, C.R, and Ellegren, H, (1998) Patterns of molecular evolution in avian microsatellites, Mol, Biol, Evol, 15, 997–1008.

    CAS  Google Scholar 

  • Prochazka, M (1996) Microsatellite hybrid capture technique for simultaneous isolation of various STR markers, Genome Res, 6, 646–649.

    PubMed  CAS  Google Scholar 

  • Provan, J., Soranzo, N., Wilson, N.J., Goldstein, D.B, and Powell, W, (1999a) A low mutation rate for chloroplast microsatellites, Genetics 153, 943–947.

    PubMed  CAS  Google Scholar 

  • Provan, J., Thomas, W.T.B., Forster, B.P, and Powell, W, (1999b) Copia-SSR: a simple marker technique which can be used on total genomic DNA, Genome 42, 363–366.

    CAS  Google Scholar 

  • Ramsay, L., Macaulay, M., Cardle, L., Morgante, M., Ivanissevich, S., Maestri, E., Powell, W, and Waugh, R, (1999) Intimate association of microsatellite repeats with retrotransposons and other dispersed repetitive elements in barley, Plant J. 17, 415–425.

    PubMed  CAS  Google Scholar 

  • Ramser, J., Weising, K., Chikaleke, V, and Kahl, G, (1997) Increased informativeness of RAPD analysis by detection of microsatellite motifs, BioTechniques 23, 285–290.

    PubMed  CAS  Google Scholar 

  • Ratnaparkhe, M.P., Santra, D.K., Tullu, A, and Muehlbauer, F.J, (1998) Inheritance of intersimple-sequence-repeat polymorphisms and linkage with a fusarium wilt resistance gene in chickpea, Theor, Appl, Genet, 96, 348–353.

    CAS  Google Scholar 

  • Richardson, T., Cato, S., Ramser, J., Kahl, G, and Weising, K, (1995) Hybridization of microsatellites to RAPD: a new source of polymorphic markers, Nucleic Acids Res, 23, 3798–3799.

    PubMed  CAS  Google Scholar 

  • Rico, C., Rico, I, and Hewitt, G, (1996) 470 million years of conservation of microsatellite loci among fish species, Proc, Roy, Soc, Lond, B 263, 549–557.

    Google Scholar 

  • Riley, J., Butler, R., Ogilvie, D., Finier, R., Jenner, D., Powel, S., Anand, R., Smith, J.C, and Markham, A.F, (1990) Nucleic Acids Res, 18, 2887–2890.

    PubMed  CAS  Google Scholar 

  • Rithidech, K.N., Dunn, J.J, and Gordon, C.R, (1997) Combining multiplex and touchdown PCR to screen murine microsatellite polymorphisms, BioTechniques 23, 36–44.

    PubMed  CAS  Google Scholar 

  • Rodriguez, H., Geistlinger, J., Berlyn, G., Kahl, G, and Weising, K, (2000) Characterization of novel microsatellite loci isolated from the tropical dioecious tree Simarouba amara, Mol, Ecol, 9, 489–504.

    Google Scholar 

  • Rohlf, F.J, (1993) NTSYS-pc: Numerical Taxonomy and Multivariant Analysis System, Exeter Software, Setauket, NY, USA

    Google Scholar 

  • Roder, M.S., Plaschke, J., König, S.U., Borner, A., Sorrells, M.E., Tanksley, S.D, and Ganal, M.W, (1995) Abundance, variability and chromosomal location of microsatellites in wheat, Mol, Gen, Genet, 246, 327–333.

    CAS  Google Scholar 

  • Rosetto, M., McLauchlan, A., Harris, F.C.L., Henry, R.J., Baverstock, P.R., Lee, L.S., Maguire, T.L, and Edwards, K.J, (1999) Abundance and polymorphism of microsatellite markers in the tea tree (Melaleuca alternifolia, Myrtaceae), Theor, Appl, Genet, 98, 1091–1098.

    Google Scholar 

  • Roy, M.S., Geffen, E., Smith, D., Ostrander, E.A, and Wayne, R.K, (1994) Patterns of differentiation and hybridization in North American wolflike canids, revealed by analysis of microsatellite loci, Mol, Biol, Evol, 11, 553–570.

    CAS  Google Scholar 

  • Rubinsztein, D.C., Amos, W., Leggo, J., Goodburn, S., Jain, S., Li, S.H., Margolis, R.L., Ross, C.A, and Ferguson-Smith, M.A, (1995) Microsatellite evolution–evidence for directionality and variation in rate between species, Nature Genet, 10, 337–343.

    PubMed  CAS  Google Scholar 

  • Saghai-Maroof, M.A., Biyashev, R.M., Yang, G.P., Zhang, Q, and Allard, R.W, (1994) Extraordinarily polymorphic microsatellite DNA in barley: species diversity, chromosomal locations, and population dynamics, Proc, Natl, Acad, Sci, USA 91, 5466–5470.

    CAS  Google Scholar 

  • Salimath, S.S., De Oliveira, A.C., Godwin, I.D, and Bennetzen, J.L, (1995) Assessment of genome origins and genetic diversity in the genus Eleusine with DNA markers, Genome 38, 757–763.

    PubMed  CAS  Google Scholar 

  • Sanchez de la Hoz, M.P., Davila, J.A., Loarce, Y, and Ferrer, E, (1996) Simple sequence repeat primers used in polymerase chain reaction amplifications to study genetic diversity in barley, Genome 39, 112–117.

    Google Scholar 

  • Santra, D.K., Tekeoglu, M., Rathnaparkhe, M.L, and Muehlbauer, F.J, (1998) Molecular markers for resistance to Ascochyta blight in chickpea, Proceedings of the 3rd European Conference on Grain Legumes, Valladolid, Spain pp 62–63.

    Google Scholar 

  • Schlötterer, C., Amos, B, and Tautz, D, (1991) Conservation of polymorphic simple sequence loci in cetacean species, Nature 354, 63–65.

    PubMed  Google Scholar 

  • Schlötterer, C., Ritter, R., Harr, B, and Brem, G, (1998) High mutation rate of a long microsatellite allele in Drosophila melanogaster provides evidence for allele-specific mutation rates, Mol, Biol, Evol, 15, 1269–1274.

    Google Scholar 

  • Schmidt, T, and Heslop-Harrison, J.S, (1996) The physical and genomic organization of microsatellites in sugar beet, Proc, Natl, Acad, Sci, USA 95, 8761–8765.

    Google Scholar 

  • Schug, M.D., Hutter, C.M., Wetterstrand, K.A., Gaudette, M.S., Mackay, T.F.C, and Aquadro, C.F, (1998) The mutation rates of di-, tri-and tetranucleotide repeats in Drosophila melanogaster, Mol, Biol, Evol, 15, 1751–1760.

    CAS  Google Scholar 

  • Schwengel, D.A., Jedlicka, A.E., Nanthakumar, E.J, Weber, J.L, and Levitt, R.C, (1994), Comparison of fluorescence-based semi-automated genotyping of multiple microsatellite loci with autoradiographic techniques, Genomics 22, 46–54.

    PubMed  CAS  Google Scholar 

  • Scott, K.D., Eggler, P., Seaton, G., Rosetto, M., Ablett, E.M., Lee, L.S, and Henry, R.J, (2000) Analysis of SSRs derived from grape ESTs, Theor, Appl, Genet, 100, 723–726

    CAS  Google Scholar 

  • Scott, L.J., Cross, M., Shepherd, M., Maguire, T, and Henry, R.J, (1999) Increasing the efficiency of microsatellite discovery from poorly enriched libraries in coniferous forest species, Plant, Mol, Biol, Rep, 17, 351–354

    CAS  Google Scholar 

  • Tautz, D, (1989) Hypervariability of simple sequences as a general source for polymorphic DNA markers, Nucleic Acids Res, 17, 6463–6471.

    PubMed  CAS  Google Scholar 

  • Scrimshaw, B.J, (1992) A simple nonradioactive procedure for visualization of (dC-dA)„ dinucleotide repeat length polymorphisms, BioTechniques 13, 189

    PubMed  CAS  Google Scholar 

  • Sharma, P.C., Winter P., Bünger, T., Hüttel, B., Weigand, F., Weising, K, and Kahl, G, (1995a) Abundance and polymorphism of di-, tri-and tetra-nucleotide tandem repeats in chickpea (Cicer arietinum L.), Theor, Appl, Genet, 90, 90–96

    CAS  Google Scholar 

  • Sharma, P.C., Hüttel, B., Winter, P., Kahl, G., Gardner, R.C, and Weising, K, (1995b) The potential of microsatellites for hybridization-and polymerase chain reaction-based DNA fingerprinting of chickpea (Cicer arietinum L.) and related species, Electrophoresis 16, 1755–1761

    PubMed  CAS  Google Scholar 

  • Sia, E.A., Jink-Robertson, S, and Petes, T.D, (1997) Genetic control of microsatellite instability, Mutation Res, 383, 61–70.

    PubMed  CAS  Google Scholar 

  • Simon, C.J, and Muehlbauer, F.J, (1997) Construction of a chickpea linkage map and its comparison with maps of pea and lentil, J, Hered, 88, 115–119.

    CAS  Google Scholar 

  • Smeets, H.J.M., Brunner, H.G., Ropers, H.-H, and Wieringa, B, (1989) Use of variable simple sequence motifs as genetic markers: application to study of myotonic dystrophy, Hum, Genet, 83, 245–251.

    CAS  Google Scholar 

  • Smulders, M.J.M., Bredemeijer, G., Rus-Kortekaas, W., Arens, P, and Vosman, B, (1997) Use of short microsatellites from database sequences to generate polymorphisms among Lycopersicon esculentum cultivars and accessions of other Lycopersicon species, Theor, Appl, Genet, 94, 264–273.

    CAS  Google Scholar 

  • Sonnante, G., Stockton, T., Nodari, R.O., Becerra-Velasquez, V.L, and Gepts, P, (1994) Evolution of genetic diversity during the domestication of common bean (Phaseolus vulgaris L), Theor, Appl, Genet, 89, 629–635.

    Google Scholar 

  • Soranzo, N., Provan, J, and Powell, W, (1999) An example of microsatellite length variation in the mitochondrial genome of conifers, Genome 42, 158–161.

    PubMed  CAS  Google Scholar 

  • Stephan, W, and Kim, Y, (1998) Persistence of microsatellite arrays in finite populations, Mol, Biol, Evol, 15, 1332–1336.

    CAS  Google Scholar 

  • Stephenson, P., Bryan, G., Kirby, J., Collins, A., Devos, K., Busso, C, and Gale, M, (1998) Fifty new microsatellite loci for the wheat genetic map, Theor, Appl, Genet, 97, 946–949.

    CAS  Google Scholar 

  • Tachida, H, and Iizuka, M, (1992) Persistence of repeated sequences that evolve by replication slippage, Genetics 131, 471–478.

    PubMed  CAS  Google Scholar 

  • Tanksley, S.D., Ganal, M.W, and Martin, G.B, (1995) Chromosome landing: a paradigm for map-based gene cloning in plants with large genomes, Trends Genet, 11, 63–68.

    PubMed  CAS  Google Scholar 

  • Taramino, G, and Tingey, S, (1996) Simple sequence repeats for germplasm analysis and mapping in maize, Genome 39, 277–287.

    PubMed  CAS  Google Scholar 

  • Temnykh, S., Park, W.D., Ayres, N., Cartinhour, S., Hauck, N., Lipovich, L., Cho, Y.G., Ishii, T, and McCouch, S.R, (2000) Mapping and genome organisation of microsatellite sequences in rice, Theor, Appl, Gene.t 100, 697–712.

    CAS  Google Scholar 

  • Terauchi, R, and Konuma, A, (1994) Microsatellite polymorphism in Dioscorea tokoro, a wild yam species, Genome 37, 794–801.

    PubMed  CAS  Google Scholar 

  • Thomas, M.R., Cain, P, and Scott, N.S, (1994) DNA typing of grapevines: a universal methodology and database for describing cultivars and evaluating genetic relatedness, Plant Mol, Biol, 25, 939–949.

    CAS  Google Scholar 

  • Thompson, L.F., Kepinski, S., Hanappel, U., Rae, S.J., Moule, C., Owen, P, and Edwards, K.J, (1999) An improved strategy for the development of high numbers of microsatellite markers from a wide range of plant species, In: International Plant and Animal Genome Conference VII, San Diego, California, p 447.

    Google Scholar 

  • Udupa, S.M., Sharma, A., Sharma, R.P, and Pai, R.A, (1993) Narrow genetic variability in Cicer arietinum L, as revealed by RFLP analysis, J, Plant Biochem, Biotechnol, 2, 83–86.

    CAS  Google Scholar 

  • Ueno, S., Yoshimaru, H., Tomaru, N, and Yamamoto, S, (1999) Development and characterization of microsatellite markers in Camellia japonica L, Mol, Ecol, 8, 335–336.

    CAS  Google Scholar 

  • van de Wiel, C., Arens, P, and Vosman, B, (1999) Microsatellite retrieval in lettuce (Lactuca sativa L.), Genome 42, 139–149.

    PubMed  CAS  Google Scholar 

  • van der Maesen, L.J.G, (1987) Origin, history and taxonomy of chickpea, In: Saxena MJ, Singh KB (eds): The Chickpea, Cambridge CAB International pp 11–34.

    Google Scholar 

  • Van Treuren, R., Kuittinen, H., Kärkäinen, K., Baena-Gonzalez, E, and Savolainen, O, (1997) Evolution of microsatellites in Arabis petraea and Arabis lyrata, outcrossing relatives of Arabidopsis thaliana, Mol, Biol, Evol, 14, 220–229.

    Google Scholar 

  • Vendramin, G.G., Anzidei, M., Madaghiele, A, and Bucci, G, (1998) Distribution of genetic diversity in Pinus pinaster Ait, as revealed by chloroplast microsatellites, Theor, Appl, Genet, 97, 456–463.

    CAS  Google Scholar 

  • Vogel, J.M, and Scolnik, P.A, (1997) Direct amplification from microsatellites: detection of of simple-sequence repeat-based polymorphism without cloning, In: Caetano-Anollés G, Gresshoff PM (eds): DNA markers: Protocols, Aplications and Overviews, Wiley-Lis, John Wiley and Sons Inc, New York, pp 133–150.

    Google Scholar 

  • Vos, P., Hogers, R., Bleeker, M., Reijans, M., van de Lee, T., Hoernes, M., Frijters, A., Pot, J., Peleman, J., Kuiper, M, and Zabeau, M, (1995) AFLP: A new technique for DNA fingerprinting, Nucleic Acids Res, 23, 4407–4414.

    PubMed  CAS  Google Scholar 

  • Vosman, B, and Arens, P, (1997) Molecular characterization of GATA/GACA microsatellite repeats in tomato, Genome 40, 25–33.

    PubMed  CAS  Google Scholar 

  • Waldbieser, G.C, (1995) PCR-based identification of AT-rich tri-and tetranucleotide repeat loci in an enriched plasmid library, BioTechniques 19, 742–744.

    PubMed  CAS  Google Scholar 

  • Weising, K., Winter, P., Hüttel, B, and Kahl, G, (1998) Microsatellite markers for molecular breeding, J, Crop Prod, 1, 113–143.

    CAS  Google Scholar 

  • Wallner, E., Weising, K., Rompf, R., Kahl, G, and Kopp, B, (1996) Oligonucleotide fingerprinting and RAPD analysis of Achillea species: characterization and long-term monitoring of micropropagated clones, Plant Cell Reports 15, 647–652.

    CAS  Google Scholar 

  • Wang, Z., Weber, J.L., Zhong, G, and Tanksley, S.D, (1994) Survey of plant short tandem DNA repeats, Theor, Appl, Genet, 88, 1–6.

    CAS  Google Scholar 

  • Wang, X, and Bowen, B, (1998) A progress report on corn genome projects at pioneer hi-bred, In: Plant and Animal Genome Conference VI, San Diego, California

    Google Scholar 

  • Wang, D.G, et al, (1998) Large-scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome, Science 280, 1077–1082.

    PubMed  CAS  Google Scholar 

  • Weber, J.L, (1990) Informativeness of human (dC-dA)„ x (dG-dT)„ polymorphisms, Genomics 7, 524–530.

    PubMed  CAS  Google Scholar 

  • Weber, J.L, and May, P.E (1989) Abundant class of human DNA polymorphisms which can be typed using the polymerase chain reaction, Am, J, Hum, Genet, 44, 388–396

    CAS  Google Scholar 

  • Weber, J.L, and Wong, C, (1993) Mutation of short tandem repeats, Hum, Mol, Genet, 2, 1123–1128.

    CAS  Google Scholar 

  • Weising, K, and Gardner, R.C, (1999) A set of conserved PCR primers for the analysis of simple sequence repeat polymorphisms in chloroplast genomes of dicotyledonous angiosperms, Genome 42, 9–19.

    PubMed  CAS  Google Scholar 

  • Weising, K, and Kahl, G, (1997) Hybridization-based microsatellite fingerprinting of plants and fungi, In: Caetano-Anollés G, Gresshoff P (eds.) DNA Markers: Protocols, Applications and Overviews, Wiley-Liss, NewYork, pp 27–54

    Google Scholar 

  • Weising, K., Weigand, F., Driesel, A.J., Kahl, G., Zischler, H, and Epplen, J.T, (1989) Polymorphic simple GATA/GACA repeats in plant genomes, Nucleic Acids Res, 17, 101–28.

    Google Scholar 

  • Weising, K., Ramser, J., Kaemmer, D., Kahlm G, and Epplen, J.T, (1991) Oligonucleotide fingerprinting in plants and fungi, In: Burke T, Dolf G, Jeffreys AJ, Wolff R (eds) DNA fingerprinting: Approaches and applications, Birkhäuser, Basel, pp 313–329.

    Google Scholar 

  • Weising, K., Kaemmer, D., Weigand, F., Epplen, J.T, and Kahl, G, (1992) Oligonucleotide fingerprinting reveals probe-dependent levels of informativeness in chickpea (Citer arietinum L.), Genome 35, 436–442.

    CAS  Google Scholar 

  • Weising, K., Nybom, H., Wolff, K, and Meyer, W, (1995a) DNA fingerprinting in plants and fungi, CRC Press, Boca Raton, Florida

    Google Scholar 

  • Weising, K., Atkinson, R.G, and Gardner, R.C, (1995b) Genomic fingerprinting by microsatellite-primed PCR: a critical evaluation, PCR Methods and Applications 4, 249–255.

    PubMed  CAS  Google Scholar 

  • Weising, K., Fungm R.W.M., Keeling, J., Atkinson, R.G, and Gardner, R.C, (1996) Cloning and characterization of microsatellite repeats from Actinidia chinensis, Mol, Breeding 2, 117–131.

    CAS  Google Scholar 

  • Wolff, K., Zietkiewicz, E, and Hofstra, H, (1995) Identification of chrysanthemum cultivars and stability of fingerprint patterns, Theor, Appl, Genet, 91, 439–447.

    CAS  Google Scholar 

  • Weissenbach, J., Gyapay, G., Dib, C., Vignal, A., Morissette, J., Millasseau, P., Vaysseix, G., Lathrop, M, (1992) A second-generation linkage map of the human genome, Nature 359, 794–801.

    PubMed  CAS  Google Scholar 

  • Westman, A.L, and Kresovich, S, (1998) The potential for cross-taxa simple-sequence repeat (SSR) Amplification between Arabidopsis thaliana L, and crop brassicas, Theor, Appl, Genet, 96, 272–281.

    CAS  Google Scholar 

  • White, G, and Powell, W, (1997a) Isolation and characterization of microsatellite loci in Swietenia humilis (Meliaceae), and endangered tropical hardwood species, Mol, Ecol, 6, 851–860.

    CAS  Google Scholar 

  • White, G, and Powell, W, (1997b) Cross-species amplification of SSR loci in the Meliaceae family, Mol, Ecol, 6, 1195–1197.

    CAS  Google Scholar 

  • Whitton, J., Rieseberg, L.H, and lingerer, M.C, (1997) Microsatellite loci are not conserved across the Asteraceae, Mol, Biol, Evol, 14, 204–209.

    CAS  Google Scholar 

  • Wierdl, M., Dominska, M, and Petes, T.D, (1997) Microsatellite instability in yeast: dependance on the length of the microsatellite, Genetics 146, 769–779.

    PubMed  CAS  Google Scholar 

  • Williams, J.G.K., Kubelik, A.R., Livak, K.J., Rafalski, J.A, and Tingey, S.V, (1990) DNA polymorphisms amplified by arbitrary primers are useful as genetic markers, Nucleic Acids Res, 18, 6531–6535.

    PubMed  CAS  Google Scholar 

  • Winter, P, and Kahl, G, (1995) Molecular marker technologies for plant improvement, World J, Microbiol, Biotechnol, 11, 438–448.

    CAS  Google Scholar 

  • Winter, P., Pfaff, T., Udupa, S.M., Hüttel, B., Sharma, P.C., Sahi, S., Arreguin-Espinoza, R., Weigand, F., Muehlbauer, F.J, and Kahl, G, (1999) Characterization and mapping of sequence-tagged microsatellite sites in the chickpea (Cicer arietinum L.) genome, Mol, Gen, Genet, 262, 90–101.

    CAS  Google Scholar 

  • Winter, P., Benko-Iseppon, A.-M., Hüttel, B., Ratnaparkhe, M., Tullu, A., Sonnante, G., Pfaff, T., Tekeoglu, M., Santra, D., Sant, V.J., Rajesh, P.N., Kahl, G, and Muehlbauer, F.J, (2000) A linkage map of the chickpea (Cicer arietinum L.) genome based on recombinant inbred lines from a C, arietinum x C, reticulatum cross: Localization of resistance genes for Fusarium races 4 and 5, Theor, Appl, Genet, 101, 1155–1163.

    CAS  Google Scholar 

  • Winzeler, E.A, et al, (1998) Direct allelic variation scanning of the yeast genome, Science 281, 1194–1197.

    PubMed  CAS  Google Scholar 

  • Wolfe, A.D., Xiang, Q.Y, and Kephart, S.R, (1998) Assessing hybridization in natural populations ofPenstemon (Scrophulariaceae) using hypervariable intersimple sequence repeat (ISSR) bands, Mol, Ecol, 7, 1107–1125.

    CAS  Google Scholar 

  • Wolff, K, and Morgan-Richards, M, (1998) PCR markers distinguish Plantago major subspecies, Theor, Appl, Genet, 96, 282–286.

    CAS  Google Scholar 

  • Wu, K.-S, and Tanksley, S.D, (1993) Abundance, polymorphism and genetic mapping of microsatellites in rice, Mol, Gen, Genet, 241, 225–235.

    CAS  Google Scholar 

  • Wu, K., Jones, R., Danneberger, L, and Scolnik, P.A, (1994) Detection of microsatellite polymorphisms without cloning, Nucleic Acids Res, 22, 3257–3258.

    PubMed  CAS  Google Scholar 

  • Yamamoto, K, and Sasaki, T, (1997) Large-scale EST sequencing in rice, Plant Mol, Biol, 35, 135–144.

    CAS  Google Scholar 

  • Zhao, X, and Kochert, G, (1993) Phylogenetic distribution and genetic mapping of a (GCC)n microsatellite from rice (Oryza sativa L.), Plant Mol, Biol, 21, 607–614.

    CAS  Google Scholar 

  • Ziegle, J.S., Su, Y., Corcoran, K.P., Nie, L., Mayrand, P.E., Hoff, L.B., McBride, L.J., Kronick, M.N, and Diehl, S.R, (1992) Application of automated DNA sizing technology for genotyping microsatellite loci, Genomics 14, 1026–1031.

    PubMed  CAS  Google Scholar 

  • Zietkiewicz, E., Rafalski, A, and Labuda, D, (1994) Genome fingerprinting by simple sequence repeat (SSR)-anchored polymerase chain reaction amplification, Genomics 20, 176–183.

    PubMed  CAS  Google Scholar 

  • Zischler, H., Kammerbauer, C., Studer, R., Grzeschik, K.H, and Epplen, J.T, (1992) Dissecting (CAC5/GTG5) multilocus fingerprints from man into individual locus-specific, hypervariable components, Genomics 13, 983–990.

    PubMed  CAS  Google Scholar 

  • Zohary, D, and Hopf, M, (1993) Domestication of plants in the old world, Clarendon Press, Oxford, pp 1–271.

    Google Scholar 

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Authors and Affiliations

  1. Plant Molecular Biology, Department of Biology, Biocentre, University of Frankfurt am Main, D-60439, Frankfurt, Germany

    Peter Winter, Bruno Hüttel, Kurt Weising & Günter Kahl

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  1. Peter Winter
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  2. Bruno Hüttel
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  3. Kurt Weising
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  4. Günter Kahl
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Editors and Affiliations

  1. FAO/IAEA Joint Division, International Atomic Energy Agency, Vienna, Austria

    S. Mohan Jain

  2. International Rice Research Institute, Los Banos, Philippines

    D. S. Brar

  3. Agriculture and Food Development Authority, Dublin, Ireland

    B. S. Ahloowalia

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Winter, P., Hüttel, B., Weising, K., Kahl, G. (2002). Microsatellites and Molecular Breeding: Exploitation of Microsatellite Variability for the Analysis of a Monotonous Genome. In: Jain, S.M., Brar, D.S., Ahloowalia, B.S. (eds) Molecular Techniques in Crop Improvement. Springer, Dordrecht. https://doi.org/10.1007/978-94-017-2356-5_4

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  • DOI: https://doi.org/10.1007/978-94-017-2356-5_4

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