Carruthers SP: Solid biofuels: fuel crops. In Crops for Industry and Energy 1994 CAS Report. Edited by Carruthers SP, Miller PA, Vaughan CMA. Centre for Agricultural Strategy, University of Reading; 1994:168–180.
Google Scholar
Grivet L, Arruda P: Sugarcane genomics: depicting the complex genome of an important tropical crop. Curr Opin Plant Biol. 2001, 5: 122-127. 10.1016/S1369-5266(02)00234-0.
Article
Google Scholar
D’Hont A, Ison D, Alix K, Roux C, Glaszmann JC: Determination of basic chromosome numbers in the genus Saccharum by physical mapping of ribosomal RNA genes. Genome. 1998, 41: 221-225. 10.1139/gen-41-2-221.
Article
Google Scholar
D’Hont A, Grivet L, Feldmann P, Rao PS, Berding N, Glauszmann JC: Characterisation of the double genome structure of modern sugarcane cultivars (Saccharum spp.) by molecular cytogenetics. Mol Gen Genet. 1996, 250: 404-413.
Google Scholar
Sreenivasan TV, Ahloowalia BS, Heinz DJ: Cytogenetics. Sugarcane improvement through breeding. Edited by: Heinz DJ. 1987, Elsevier Press, New York, 211-253. 10.1016/B978-0-444-42769-4.50010-2.
Chapter
Google Scholar
Burner DM, Legendre BL: Chromosome transmission and meiotic stability of sugarcane (Saccharum spp.) hybrid derivatives. Crop Sci. 1993, 33: 600-606. 10.2135/cropsci1993.0011183X003300030036x.
Article
Google Scholar
Aitken KS, Li JC, Jackson P, Piperidis G, McIntyre CL: AFLP analysis of genetic diversity within Saccharum officinarum and comparison with sugarcane cultivars. Aust J Agric Res. 2006, 57: 1167-1184. 10.1071/AR05391.
Article
CAS
Google Scholar
Al-Janabi SM, Honeycutt RJ, McClelland M, Sobral BWS: A genetic linkage map of Saccharum spontaneum L. ‘SES 208’. Genetics. 1993, 134: 1249-1260.
PubMed Central
CAS
PubMed
Google Scholar
Mudge J, Andersen WR, Kehrer RL, Fairbanks DJ: A RAPD genetic map of Saccharum officinarum. Crop Sci. 1996, 36: 1362-1366. 10.2135/cropsci1996.0011183X003600050046x.
Article
CAS
Google Scholar
Da Silva JAG, Honeycutt RJ, Burnquist W, Al-Janabi SM, Sorrells ME, Tanksley SD, Sobral BWS: Saccharum spontaneum L. ‘SES 208’ genetic linkage map combining RFLP and PCR-based markers. Mol Breeding. 1995, 1: 165-179. 10.1007/BF01249701.
Article
Google Scholar
Grivet L, D’Hont A, Roques D, Feldmann P, Lanaud C, Glaszmann JC: RFLP mapping in cultivated sugarcane (Saccharum spp.): genome organisation in a highly polyploid and aneuploid interspecific hybrid. Genetics. 1996, 142: 987-1000.
PubMed Central
CAS
PubMed
Google Scholar
Ming R, Liu S-C, Lin Y-R, da Silva J, Wilson W, Braga D, van Deynze A, Wenslaff TF, Wu KK, Moore PH, Burnquist W, Sorrells ME, Irvine JE, Paterson AH: Detailed alignment of saccharum and sorghum chromosomes: comparative organisation of closely related diploid and polyploidy genomes. Genetics. 1998, 150: 1663-1682.
PubMed Central
CAS
PubMed
Google Scholar
Ming R, Del Monte TA, Hernandez E, Moore PH, Irvine JE, Paterson AH: Comparative analysis of QTLs affecting plant height and flowering among closely-related diploid and polyploidy genomes. Genome. 2002, 45: 794-803. 10.1139/g02-042.
Article
CAS
PubMed
Google Scholar
Hoarau JY, Offmann B, D’Hont A, Risterucci AM, Roques D, Glaszmann JC, Grivet L: Genetic dissection of a modern sugarcane cultivar (Saccharum spp.). 1. Genome mapping with AFLP markers. Theor Appl Genet. 2001, 103: 84-97. 10.1007/s001220000390.
Article
CAS
Google Scholar
Aitken KS, Jackson PA, McIntyre CL: A combination of AFLP and SSR markers provides extensive map coverage and identification of homo(eo)logous linkage groups in a sugarcane cultivar. Theor Appl Genet. 2005, 110: 789-801. 10.1007/s00122-004-1813-7.
Article
CAS
PubMed
Google Scholar
Andru S, Yoong-Bao P, Thongthawee S, Burner DM, Kimbeng CA: Genetic analysis of the sugarcane (Saccharum spp.) cultivar ‘LCP 85-384’. I. Linkage mapping using AFLP, SSR and TRAP markers. Theor Appl Genet. 2011, 123: 77-93. 10.1007/s00122-011-1568-x.
Article
PubMed
Google Scholar
Rossi M, Araujo PG, Paulet F, Garsmeur O, Dias VM, Chen H, Van Sluys MA, D’Hont A: Genomic distribution and characterisation of EST-derived resistance gene analogs (RGAs) in sugarcane. Mol Gen Genomics. 2003, 269: 406-419. 10.1007/s00438-003-0849-8.
Article
CAS
Google Scholar
Oliveira KM, Pinto LR, Marconi TG, Margarido GRA, Pastina MM, Teixeira LHM, Figueira AV, Ulian EC, Garcia AAF, Souza AP: Functional integrated genetic linkage map based on EST-markers for a sugarcane (Saccharum spp.) commercial cross. Mol Breed. 2007, 20: 189-208. 10.1007/s11032-007-9082-1.
Article
CAS
Google Scholar
Wenzl P, Carling J, Kudrna D, Jaccoud D, Huttner E, Kleinhofs A, Kilian A: Diversity arrays technology (DArT) for whole-genome profiling of barley. Proc Natl Acad Sci U S A. 2004, 101: 9915-9920. 10.1073/pnas.0401076101.
Article
PubMed Central
CAS
PubMed
Google Scholar
Jaccoud D, Peng K, Feinstein D, Kilian A: Diversity arrays: a solid state technology for sequence information independent genotyping. Nucleic Acids Res. 2001, 29: e25-10.1093/nar/29.4.e25.
Article
PubMed Central
CAS
PubMed
Google Scholar
Akbari M, Wenzl P, Caig V, Carling J, Xia L, Yang SY, Uszynski G, Mohler V, Lehmensiek A, Kuchel H, Hayden MJ, Howes N, Sharp P, Vaughan P, Rathmell B, Huttner E, Kilian A: Diversity arrays technology (DArT) for high-throughput profiling of the hexaploid wheat genome. Theor Appl Genet. 2006, 113: 1409-1420. 10.1007/s00122-006-0365-4.
Article
CAS
PubMed
Google Scholar
Mace ES, Xia L, Jordan DR, Halloran K, Parh DK, Huttner E, Wenzl P, Kilian A: DArT markers: diversity analyses and mapping in Sorghum bicolor. BMC Genomics. 2008, 9: 26-37. 10.1186/1471-2164-9-26.
Article
PubMed Central
PubMed
Google Scholar
Heller-Uszynska K, Uszynski G, Huttner E, Evers M, Carlig J, Caig V, Aitken K, Jackson P, Piperidis G, Cox M, Gilmour R, D’Hont A, Butterfield M, Glaszmann JC, Kilian A: Diversity arrays technology effectively reveals DNA polymorphism in a large and complex genome of sugarcane. Mol Breed. 2010, 28: 37-55. 10.1007/s11032-010-9460-y.
Article
Google Scholar
Aitken KS, McNeil MD, Hermann S, Bundock PC, Kilian A, Heller-Usznska K, Henry RJ, Li J: A comprehensive genetic map of sugarcane that provides enhanced map coverage and integrates high throughput Diversity Array Technology (DArT) markers. BMC Genomics. 2014, 15: 152-10.1186/1471-2164-15-152.
Article
PubMed Central
PubMed
Google Scholar
Paterson AH, Bowers JE, Bruggmann R, Dubchak I, Grimwood J, Gundlach H, Haberer G, Hellsten U, Mitros T, Poilakov A, Schmutz J, Spannagl M, Tang HB, Wang XY, Wicker T, Bharti AK, Chapman J, Feltus FA, Gowik U, Grigoriev IV, Lyons E, Maher CA, Martis M, Narechania A, Otillar RP, Penning BW, Salamov AA, Wang Y, Zhang LF, Carpita NC, et al: The Sorghum bicolor genome and the diversification of grasses. Nature. 2009, 457: 551-556. 10.1038/nature07723.
Article
CAS
PubMed
Google Scholar
Salse J, Bolot S, Throude M, Jouffe V, Piegu B, Masood Quraishi U, Calcagno T, Cooke R, Delseny M, Feuillet C: Identification and characterisiation of shared duplications between rice and wheat provide new insight into grass genome evolution. Plant Cell. 2008, 20: 11-24. 10.1105/tpc.107.056309.
Article
PubMed Central
CAS
PubMed
Google Scholar
Jannoo N, Grivet L, Chantret N, Garsmeur O, Glaszmann JC, Arruda P, D’Hont A: Orthologous comparison in a gene-rich region among grasses reveals stability in the sugarcane polyploidy genome. Plant J. 2007, 50: 574-585. 10.1111/j.1365-313X.2007.03082.x.
Article
CAS
PubMed
Google Scholar
Garsmeur O, Charron C, Bocs S, Jouffe V, Samain S, Couloux A, Droc G, Zini C, Glaszmann JC, Van Sluys MA, D’Hont A: High homologous gene conservation despite extreme autoplyploid redundancy in sugarcane. New Phytol. 2010, 189: 629-642. 10.1111/j.1469-8137.2010.03497.x.
Article
PubMed
Google Scholar
Salse J, Abrouk M, Murat F, Quraishi UM, Feuillet C: Improved criteria and comparative genomics tool provide new insights into grass paleogenomics. Brief Bioinform. 2009, 2009 (10): 619-630. 10.1093/bib/bbp037.
Article
Google Scholar
Piperidis G, Piperidis N, D’Hont A: Molecular cytoogenetic investigation of chromsome composition and transmission in sugarcane. Mol Gen Genomics. 2010, 284: 65-73. 10.1007/s00438-010-0546-3.
Article
CAS
Google Scholar
Swigonova Z, Lai JS, Ma JX, Ramakrishna W, Llaca V, Bennetzen JL, Messing J: Close split of sorghum and maize genome progenitors. Genome Res. 2004, 14: 1916-1923. 10.1101/gr.2332504.
Article
PubMed Central
CAS
PubMed
Google Scholar
Dufour P, Deu M, Grivet L, D’Hont A, Paulet F, Bouet A, Lanaud C, Glaszmann JC, Hamon P: Construction of a composite sorghum genome map and comparison with sugarcane, a related complex polyploidy. Theor Appl Genet. 1997, 94: 409-418. 10.1007/s001220050430.
Article
CAS
Google Scholar
Glaszmann JC, Dufour P, Grivet L, D’Hont A, Deu M, Paulet F, Hamon P: Comparative genome analysis between several tropical grasses. Euphytica. 1997, 96: 13-21. 10.1023/A:1002987620250.
Article
CAS
Google Scholar
Tang H, Bowers JE, Wang X, Ming R, Alam M, Paterson P: Synteny and collinearity in plant genomes. Science. 2008, 320: 486-488. 10.1126/science.1153917.
Article
CAS
PubMed
Google Scholar
Wang X, Tang H, Bowers JE, Paterson AH: Comparative inference of illegitimate recombination between rice and sorghum duplicated genes produced by polyploidization. Genome Res. 2009, 19: 1026-1032. 10.1101/gr.087288.108.
Article
PubMed Central
CAS
PubMed
Google Scholar
Ma X-F, Jensen E, Alexandrov N, Troukhan M, Zhang LP, Thomas-Jones S, Farrar K, Clifton-Brown J, Donnison I, Swaller T, Flavell R: High resolution genetic mapping by genome sequencing reveals genome duplication and tetraploid genetic structure of the diploid Miscanthus sinesis. PLoS ONE. 2012, 7: e33821-10.1371/journal.pone.0033821.
Article
PubMed Central
CAS
PubMed
Google Scholar
Murat F, Xu J-H, Tannier E, Abrouk M, Guilhot N, Pont C, Messing J, Salse J: Ancestral grass karyotype reconstruction unravels new mechanisms of genome shuffling as a source of plant evolution. Genome Res. 2010, 2010 (20): 1545-1557. 10.1101/gr.109744.110.
Article
Google Scholar
Schubert I, Lysak MA: Interpretation of karyotype evolution should consider chromsome structural constraints. Trends Genet. 2011, 27: 207-216. 10.1016/j.tig.2011.03.004.
Article
CAS
PubMed
Google Scholar
Panje R, Babu C: Studies in Saccharum spontaneum. Distribution and geographical association of chromosome numbers. Cytologia. 1960, 25: 152-172. 10.1508/cytologia.25.152.
Article
Google Scholar
Fan LN, Deng HH, Luo QW, He HY, Li Y, Wang QN, Huang ZX, Wu JT, Li SM, Qi YW: Genetic diversity of Saccharum spontaneum from geographical regions of China assessed by simple sequence repeats. Genetics and Molecular Research. 2013, 12: 5916-5925. 10.4238/2013.November.26.1.
Article
CAS
PubMed
Google Scholar
Hegarty M, Hiscock S: Polyploidy: doubling up for evolutionary success. Curr Biol. 2007, 2007 (17): 927-929. 10.1016/j.cub.2007.08.060.
Article
Google Scholar
Van de Peer Y, Maere S, Meyer A: The evolutionary significance of ancient genome duplications. Nat Rev Genet. 2009, 10: 725-732. 10.1038/nrg2600.
Article
CAS
PubMed
Google Scholar
Schnable PS, Ware D, Fulton RS, Stein JC, Wei FS, Pasternak S, Liang CZ, Zhang JW, Fulton L, Graves TA, Minx P, Reily AD, Courtney L, Kruchowski SS, Tomlinson C, Strong C, Delehaunty K, Fronick C, Courtney B, Rock SM, Belter E, Du FY, Kim K, Abbott RM, Cotton M, Levy A, Marchetto P, Ochoa K, Jackson SM, Gillam B, et al: The B73 maize genome: complexity, diversity, and dynamics. Science. 2009, 326: 1112-1115. 10.1126/science.1178534.
Article
CAS
PubMed
Google Scholar
Wang J, Roe B, Macmil S, Yu Q, Murray JE, Tang H, Chen C, Najar F, Wiley G, Bowers J, Van Sluys MA, Rokhsar DS, Hudson ME, Moose SP, Paterson AH, Ming R: Microcollinearity between autopolyploid sugarcane and diploid sorghum genomes. BMC Genomics. 2010, 11: 261-10.1186/1471-2164-11-261.
Article
PubMed Central
PubMed
Google Scholar
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ: Basic local alignment search tool. J Mol Biol. 1990, 1990 (215): 403-410. 10.1016/S0022-2836(05)80360-2.
Article
Google Scholar
Goodstein DM, Shu S, Howson R, Neupane R, Hayes RD, Fazo J, Mitros T, Dirks W, Hellsten U, Putnam N, Rokhsar DS: Phytozome: a comparative platform for green plant genomics. Nucleic Acids Res. 2012, 40: 1178-1186. 10.1093/nar/gkr944.
Article
Google Scholar
Bolot S, Abrouk M, Masood-Quraishi U, Stein N, Messing J, Feuillet C, Salse J: The ‘inner circle’ of the cereal genomes. Curr Opin Plant Biol. 2009, 12: 119-125. 10.1016/j.pbi.2008.10.011.
Article
CAS
PubMed
Google Scholar
Bundock PC, Eilot FG, Ablett G, Benson AD, Casu RE, Aitken KS, Henry RJ: Targeted single nucleotide polymorphism (SNP) discovery in a highly polyploidy plant species using 454 sequencing. Plant Biotechnol J. 2009, 2009 (7): 347-354. 10.1111/j.1467-7652.2009.00401.x.
Article
Google Scholar
Chao S, Sharp PJ, Worland AJ, Warham EJ, Koebner RMD, Gale MD: RFLP-based genetic maps of wheat homologous group-7 chromosomes. Theor Appl Genet. 1989, 78: 495-504. 10.1007/BF00290833.
Article
CAS
PubMed
Google Scholar
Van Ooijen JW: JoinMao 4, Software for the calculation of genetic linkage maps in experimental populations. Kyazma BV, Wageningen, Netherlands 2006.
Google Scholar