In the past few years, approaches such as molecular cytogenetics and the use of molecular markers have permitted significant advances in the establishment of the evolutionary origin and genome structure of sugarcane, an important polyploid crop. The availability of new resources, such as a bacterial artificial chromosome library and a huge collection of expressed sequence tags, has opened the gateway to promising functional analyses on a genomic scale.52122127Daniels, J., Roach, B.T., Taxonomy and evolution (1987) Sugarcane Improvement Through Breeding, pp. 7-84. , Edited by Heinz DJ. Amsterdam: Elsevier PressBerding, N., Roach, B.T., Germplasm collection, maintenance, and use (1987) Sugarcane Improvement Through Breeding, pp. 143-210. , Edited by Heinz DJ. Amsterdam: Elsevier PressSreenivasan, T.V., Ahloowalia, B.S., Heinz, D.J., Cytogenetics (1987) Sugarcane Improvement Through Breeding, pp. 211-253. , Edited by Heinz DJ. Amsterdam: Elsevier PressButterfield, M.K., D'Hont, A., Berding, N., The sugarcane genome: A synthesis of current understanding, and lessons for breeding and biotechnology (2001) Proc Soc Afr Sugarcane Technol Ass, 75, pp. 1-5D'Hont, A., Glaszmann, J.C., Sugarcane genome analysis with molecular markers, a first decade of research (2001) Proc Int Soc Sugarcane Technol, 24, pp. 556-559D'Hont, A., Ison, D., Alix, K., Roux, C., Glaszmann, J.C., Determination of basic chromosome numbers in the genus Saccharum by physical mapping of ribosomal RNA genes (1998) Genome, 41, pp. 221-225Ha, S., Moore, P.H., Heinz, D., Kato, S., Ohmido, N., Fukui, K., Quantitative chromosome map of the polyploid Saccharum spontaneum by multicolor fluorescence in situ hybridization and imaging methods (1999) Plant Mol Biol, 39, pp. 1165-1173Grivet, L., D'Hont, A., Roques, D., Feldmann, P., Lanaud, C., Glaszmann, J.C., RFLP mapping in cultivated sugarcane (Saccharum spp): Genome organization in a highly polyploid and aneuploid interspecific hybrid (1996) Genetics, 142, pp. 987-1000Ming, R., Liu, S.C., Lin, Y.R., Da Silva, J., Wilson, W., Braga, D., Van Deynze, A., Moore, P.H., Detailed alignment of Saccharum and Sorghum chromosomes: Comparative organization of closely related diploid and polyploid genomes (1998) Genetics, 150, pp. 1663-1682D'Hont, A., Grivet, L., Feldmann, P., Rao, S., Berding, N., Glaszmann, J.C., Characterisation of the double genome structure of modern sugarcane cultivars (Saccharum spp) by molecular cytogenetics (1996) Mol Gen Genet, 250, pp. 405-413D'Hont, A., Rao, P.S., Feldmann, P., Grivet, L., Islam-Faridi, N., Taylor, P., Glaszmann, J.C., Identification and characterization of sugarcane intergeneric hybrids, Saccharum officinarum x Erianthus arundinaceus, with molecular markers and DNA in situ hybridization (1995) Theor Appl Genet, 91, pp. 320-326Besse, P., McIntyre, C.L., Berding, N., Characterisation of Erianthus sect. Ripidium and Saccharum germplasm (Andropogoneae - Saccharinae) using RFLP markers (1997) Euphytica, 93, pp. 283-292Alix, K., Baurens, F.C., Paulet, F., Glaszmann, J.C., D'Hont, A., Isolation and characterization of a satellite DNA family in the Saccharum complex (1998) Genome, 41, pp. 854-864Alix, K., Paulet, F., Glaszmann, J.C., D'Hont, A., Inter-Alu-like species-specific sequences in the Saccharum complex (1999) Theor Appl Genet, 99, pp. 962-968Nair, N.V., Nair, S., Sreenivasan, T.V., Mohan, M., Analysis of genetic diversity and phylogeny in Saccharum and related genera using RAPD markers (1999) Genet Res Crop Evol, 46, pp. 73-79Piperidis, G., Christopher, M.J., Carroll, B.J., Berding, N., D'Hont, A., Molecular contribution to selection of intergenerlc hybrids between sugarcane and the wild species Erianthus arundinaceus (2000) Genome, 43, pp. 1033-1037Lu, Y.H., D'Hont, A., Paulet, F., Grivet, L., Arnaud, M., Glaszmann, J.C., Molecular diversity and genome structure in modern sugarcane varieties (1994) Euphytica, 78, pp. 217-226Jannoo, N., Grivet, L., Seguin, M., Paulet, F., Domaingue, R., Rao, P.S., Dookun, A., Glaszmann, J.C., Molecular investigation of the genetic base of sugarcane cultivars (1999) Theor Appl Genet, 99, pp. 171-184De la Lima, M., Garcia, A.A.F., Oliveira, K.M., Matsuoka, S., De Souza Jr., C.L., Souza de, A.P., Comparative analysis of genetic similarity detected by AFLP and coefficient of parentage among cultivars of sugarcane (2002) Theor Appl Genet, , in pressJannoo, N., Grivet, L., Dookun, A., D'Hont, A., Glaszmann, J.C., Linkage disequilibrium among modern sugarcane cultivars (1999) Theor Appl Genet, 99, pp. 1053-1060Kruglyak, L., Prospects for whole-genome linkage disequilibrium mapping of common disease genes (1999) Nat Genet, 22, pp. 139-144Huttley, G.A., Smith, M.W., Carrington, M., O'Brien, S.J., A scan for linkage disequilibrium across the human genome (1999) Genetics, 152, pp. 1711-1722Wu, K.K., Burnquist, W., Sorrels, M.E., Tew, T.L., Moore, P.H., Tanksley, S.D., The detection and estimation of linkage in polyploids using single-dose restriction fragments (1992) Theor Appl Genet, 83, pp. 294-300Al-Janabi, S.M., Honeycutt, R.J., McClelland, M., Sobral, B.W., A genetic linkage map of Saccharum spontaneum L. 'SES 208' (1993) Genetics, 134, pp. 1249-1260Da Silva, J.A.G., Burnquist, W.L., Tanksley, S.D., RFLP linkage map and genome analysis of Saccharum spontaneum (1993) Genome, 36, pp. 782-791Ming, R., Liu, S.C., Bowers, J.E., Moore, P.H., Irvine, J.E., Paterson, A.H., Construction of a Saccharum consensus genetic map from two interspecific crosses (2002) Crop Sci, , in pressMudge, J., Andersen, W.R., Kehrer, R.L., Fairbanks, D.J., A RAPD genetic map of Saccharum officinarum (1996) Crop Sci, 36, pp. 1362-1366Guimaraes, C.T., Honeycutt, R.J., Sills, G.R., Sobral, B.W.S., Genetic maps of Saccharum officinarum L. and Saccharum robustum Brandes & Jew. Ex Grassl (1999) Genet Mol Biol, 22, pp. 125-132D'Hont, A., Lu, Y.H., González de Leon, D., Grivet, L., Feldmann, P., Lanaud, C., Glaszmann, J.C., A molecular approach to unraveling the genetics of sugarcane, a complex polyploid of the Andropogoneae tribe (1994) Genome, 37, pp. 222-230Hoarau, J.Y., Offmann, B., D'Hont, A., Risterucci, A.M., Roques, D., Glaszmann, J.C., Grivet, L., Genetic dissection of a modern sugarcane cultivar (Saccharum spp). I. Genome mapping with AFLP markers (2001) Theor Appl Genet, 103, pp. 84-97Cordeiro, G.M., Taylor, G.O., Henry, R.J., Characterisation of microsatellite markers from sugarcane (Saccharum sp.), a highly polyploid species (2000) Plant Sci, 155, pp. 161-168Qu, L., Hancock, J.F., Detecting and mapping repulsion-phase linkage in polyploids with polysomic inheritance (2001) Theor Appl Genet, 103, pp. 136-143Al-Janabi, S.M., Honeycutt, R.J., Sobral, B.W., Chromosome assortment in Saccharum (1994) Theor Appl Genet, 89, pp. 959-963Daugrois, J.H., Grivet, L., Roques, D., Hoarau, J.Y., Lombard, H., Glaszmann, J.C., D'Hont, A., A putative major gene for rust resistance linked with a RFLP marker in sugarcane cultivar 'R570' (1996) Theor Appl Genet, 92, pp. 1059-1064Ming, R., Liu, S.-C., Moore, P.H., Irvine, J.E., Paterson, A.H., QTL analysis in a complex autopolyploid: Genetic control of sugarcane content in sugarcane (2001) Genome Res, 11, pp. 2075-2084Hoarau, J.Y., Grivet, L., Offmann, B., Raboin, L.M., Diorflar, J.P., Payet, J., D'Hont, A., Glaszmann, J.C., Genetic dissection of a modern sugarcane cultivar (Saccharum spp.). II. Detection of QTLs for yield components (2002) Theor Appl Genet, , in pressDoerge, R.W., Craig, B.A., Model selection for quantitative trait locus analysis in polyploids (2000) Proc Natl Acad Sci USA, 97, pp. 7951-7956Kellogg, E.A., Evolutionary history of the grasses (2001) Plant Physiol, 125, pp. 1198-1205Freeling, M., Grasses as a single genetic system. Reassessment 2001 (2001) Plant Physiol, 125, pp. 1191-1197Gale, M.D., Devos, K.M., Plant comparative genetics after 10 years (1998) Science, 282, pp. 656-659Dufour, P., Grivet, L., D'Hont, A., Deu, M., Trouche, G., Glaszmann, J.C., Hamon, P., Comparative genetic mapping between duplicated segments on maize chromosomes 3 and 8 and homoeologous regions in sorghum and sugarcane (1996) Theor Appl Genet, 92, pp. 1024-1030Dufour, P., Deu, M., Grivet, L., D'Hont, A., Paulet, F., Bouet, A., Lanaud, C., Hamon, P., Construction of a composite sorghum genome map and comparison with sugarcane, a related complex polyploid (1997) Theor Appl Genet, 94, pp. 409-418Guimaraes, C.T., Sills, G.R., Sobral, B.W.S., Comparative mapping of Andropogoneae: Saccharum L. (sugarcane) and its relation to sorghum and maize (1997) Proc Natl Acad Sci USA, 94, pp. 14261-14266Grivet, L., D'Hont, A., Dufour, P., Hamon, P., Roques, P., Glaszmann, J.C., Comparative genome mapping of sugar cane with other species within the Andropogoneae tribe (1994) Heredity, 73, pp. 500-508Gaut, B.S., Le Thierry d'Ennequin, M., Pekk, A.S., Sawkins, M.C., Maize as a model for the evolution of plant nuclear genomes (2000) Proc Natl Acad Sci USA, 97, pp. 7008-7015Paterson, A.H., Lin, Y.R., Li, Z., Schertz, K.F., Doebley, J.F., Pinson, S.R.M., Liu, S.C., Irvine, J.E., Convergent domestication of cereal crops by independent mutations at corresponding loci (1995) Science, 269, pp. 1714-1718Glaszmann, J.C., Dufour, P., Grivet, L., D'Hont, A., Deu, M., Paulet, F., Hamon, P., Comparative genome analysis between several tropical grasses (1997) Euphytica, 96, pp. 13-21Ventelon, M., Deu, M., Garsmeur, O., Doligez, A., Ghesquière, A., Lorieux, M., Rami, J.F., Grivet, L., A direct comparison between the genetic maps of sorghum and rice (2001) Theor Appl Genet, 102, pp. 379-386Asnaghi, C., Paulet, F., Kaye, C., Grivet, L., Deu, M., Glaszmann, J.C., D'Hont, A., Application of synteny across Poaceae to determine the map location of a sugarcane rust resistance gene (2000) Theor Appl Genet, 101, pp. 962-969Tomkins, J.P., Yu, Y., Miller-Smith, H., Frisch, D.A., Woo, S.S., Wing, R.A., A bacterial artificial chromosome library for sugarcane (1999) Theor Appl Genet, 99, pp. 419-424Draye, X., Lin, Y.R., Qian, X.Y., Bowers, J.E., Burow, G.B., Morrell, P.L., Peterson, D.G., Paterson, A.H., Toward integration of comparative genetic, physical, diversity, and cytomolecular maps for grasses and grains, using the sorghum genome as a foundation (2001) Plant Physiol, 125, pp. 1325-1341D'Hont, A., Raboin, L.M., Begum, D., Wing, R., Glaszmann, J.C., Chromosome walking towards a major resistance gene for common rust of sugarcane (2001) Proc Int Soc Sugarcane Technol, 24, pp. 315-316Carson, D.L., Botha, F.C., Preliminary analysis of expressed sequence tags for sugarcane (2000) Crop Sci, 40, pp. 1769-1779Casu, R., Dimmock, C., Thomas, M., Bower, N., Knight, D., Grof, C., McIntyre, L., Whan, V., Genetic and expression profiling in sugarcane (2001) Proc Int Soc Sugarcane Technol, 24, pp. 626-627Simpson, A.J.G., Perez, J.F., Latin America - ONSA, the Sao Paulo virtual genomics institute (1998) Nat Biotechnol, 16, pp. 795-796Ingelbrecht, I.L., Irvine, J.E., Mirkov, T.E., Posttranscriptional gene silencing in transgenic sugarcane. Dissection of homology-dependent virus resistance in a monocot that has a complex polyploid genome (1999) Plant Physiol, 119, pp. 1187-1197