Genomics approaches for the identification of genes determining important traits in sugarcane

Field Crops Research

Volumn 92, Issue 2-3 SPEC. ISS., 2005, Pages 137-147

  Casu, Rosanne E ^a,b   Manners, John M ^a,b   Bonnett, Graham D ^a,b   Jackson, Phillip A ^a,b   McIntyre, C Lynne ^a,b   Dunne, Rob ^a   Chapman, Scott C ^a,b   Rae, Anne L ^a,b   Grof, Christopher P L ^a,b  

^a CSIRO   (Australia)

^b Davies Laboratory ^*  (Australia)

Author keywords

DNA markers; EST sequencing; Genetical genomics; Microarrays; Sugar metabolism; Sugarcane physiology

Indexed keywords

CROPS; DNA; GENETIC ENGINEERING; PLANTS (BOTANY); SUGAR CANE; TISSUE;

CROP PLANTS; EUKARYOTE; GENOMICS; STEM FUNCTIONS;

GENES;

SUGAR CANE;

GENES; GENETIC ENGINEERING; GRASS LANDS; NUCLEIC ACIDS; PLANT TISSUES; PLANTS; POLYPLOIDS; SUGAR CANE;

EUKARYOTA; SACCHARUM HYBRID CULTIVAR;

EID: 18144429509     PISSN: 03784290     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.fcr.2005.01.029     Document Type: Conference Paper

References (38)

1. Arruda, P., 2001. Sugarcane transcriptome: a landmark in plant genomics in the tropics. In: Arruda, P. (Ed.), Special volume on Sugarcane Transcriptome. Genet. Mol. Biol. 24, 1-296.
2. C. Asnaghi, F. Paulete, C. Kaye, L. Grivet, M. Deu, J.-C. Glaszmann, and A. D'Hont Application of synteny across Poaceae to determine the map location of a sugarcane rust resistance gene Theor. Appl. Genet. 101 2000 962 969
3. D.L. Carson, and F.C. Botha Preliminary analysis of expressed sequence tags for sugarcane Crop Sci. 40 2000 1769 1779
4. D.L. Carson, and F.C. Botha Genes expressed in sugarcane maturing internodal tissue Plant Cell Rep. 20 2002 1075 1081
5. D.L. Carson, B.I. Huckett, and F.C. Botha Sugarcane ESTs differentially expressed in immature and maturing internodal tissue Plant Sci. 162 2002 289 300
6. R.E. Casu, C.M. Dimmock, S.C. Chapman, C.P.L. Grof, C.L. McIntyre, G.D. Bonnett, and J.M. Manners Identification of differentially expressed transcripts from maturing stem of sugarcane by in silico analysis of stem expressed sequence tags and gene expression profiling Plant Mol. Biol. 54 2004 503 517
7. R. Casu, C. Dimmock, M. Thomas, N. Bower, D. Knight, C. Grof, L. McIntyre, P. Jackson, D. Jordan, V. Whan, J. Drenth, Y. Tao, and J. Manners Genetic and expression profiling in sugarcane Proc. Int. Soc. Sugar Cane Tech. 24 2001 542 546
8. R.E. Casu, C.P.L. Grof, A.L. Rae, C.L. McIntyre, C.M. Dimmock, and J.M. Manners Identification of a novel sugar transporter homologue strongly expressed in maturing stem vascular tissues of sugarcane by expressed sequence tag and microarray analysis Plant Mol. Biol. 52 2003 371 386
9. G.M. Cordeiro, R. Casu, C.L. McIntyre, J.M. Manners, and R.J. Henry Microsatellite markers from sugarcane (Saccharum spp.) ESTs cross transferable to erianthus and sorghum Plant Sci. 160 2001 1115 1123
10. J.A.G. Da Silva, W.L. Burnquist, and S.D. Tanksley RFLP linkage map and genome analysis of Saccharum spontaneum Genome 36 1993 782 791
11. A. D'Hont, L. Grivet, P. Feldmann, S. Rao, N. Berding, and J.-C. Glaszmann Characterisation of the double genome structure of modern sugarcane cultivars (Saccharum spp.) by molecular cytogenetics Mol. Gen. Genet. 250 1996 405 413
12. P. Dufour, M. Deu, L. Grivet, A. D'Hont, F. Paulet, A. Bouet, C. Lanaoud, J.C. Glaszmann, and P. Hamon Construction of a composite sorghum genome map and comparison with sugarcane, a related complex polyploid Theor. Appl. Genet. 94 1997 409 418
13. M.C. Falco, and M.C. Silva-Filho Expression of proteinase inhibitors in transgenic sugarcane plants: effects on natural defense against Diatraea saccharalis Plant Physiol. Biochem. 41 2003 761 766
14. E. Fridman, T. Pleban, and D. Zamir A recombination hotspot delimits a wild-species quantitative trait locus for tomato sugar content to 484 bp within an invertase gene Proc. Natl. Acad. Sci. U.S.A. 97 2000 4718 4723
15. J.C. Glaszmann, P. Dufour, L. Grivet, A. D'Hont, M. Deu, F. Paulet, and P. Hamon Comparative genome analysis between several tropical species Euphytica 96 1997 13 21
16. L. Grivet, and P. Arruda Sugarcane genomics: depicting the complex genome of an important tropical crop Curr. Opin. Plant Biol. 5 2002 122 127
17. L. Grivet, J.-C. Glaszmann, M. Vincentz, F. da Silva, and P. Arruda ESTs as a source for sequence polymorphism discovery in sugarcane: example of the Adh genes Theor. Appl. Genet. 106 2003 190 197
18. J.Y. Horeau, B. Offman, A. D'Hont, A.M. Risterucci, D. Roques, J.C. Glaszmann, and L. Grivet Genetic dissection of a modern sugarcane cultivar (Saccharum spp.). I. Genome mapping with AFLP markers Theor. Appl. Genet. 103 2001 84 97
19. P.A. Jackson, and T.E. Morgan Early stage selection for commercial cane sugar (CCS) in sugarcane clones: effects of time of sampling and irrigation Aust. J. Agric. Res. 54 2003 389 396
20. K.R. Jacobsen, D.G. Fisher, A. Maretzki, and P.H. Moore Developmental changes in the anatomy of the sugarcane stem in relation to phloem unloading and sucrose storage Bot. Acta 105 1992 70 80
21. R.C. Jansen, and J.P. Nap Genetical genomics: the added value from segregation Trends Genet. 17 2001 388 391
22. Jaunoo, N., Grivet, L., D'Hont, A., Arruda, P., 2003. Genomic sequencing in sugarcane: first insight into the physical organisation of the genome and microsynteny with other grasses. Abstracts of PAG XI Conference, San Diego, Abstract W182. URL: http://www.intl-pag.org//11/abstracts/W26_W182_XI.html.
23. E.E. Kurama, R.C. Fenille, V.E. Rosa Jr., D.D. Rosa, and E.C. Ulian Mining the enzymes involved in the detoxification of reactive oxygen species (ROS) in sugarcane Mol. Plant Pathol. 3 2002 251 259
24. H.M. Ma, S. Schulze, S. Lee, M. Yang, E. Mirkov, J. Irvine, P. Moore, and A. Paterson An EST survey of the sugarcane transcriptome Theor. Appl. Genet. 108 2004 851 863
25. M.O. Mello, A.S. Tanaka, and M.C. Silva-Filho Molecular evolution of Bowman-Birk type proteinase inhibitors in flowering plants Mol. Phylogenet. Evol. 27 2003 103 112
26. R. Ming, T.A. Del Monte, E. Hernandez, P.H. Moore, J.E. Irvine, and A.H. Paterson Comparative analysis of QTLs affecting plant height and flowering among closely-related diploid and polyploid genomes Genome 45 2002 794 803
27. R. Ming, S.-C. Liu, J.E. Bowers, P.H. Moore, J.E. Irvine, and A.H. Paterson Construction of a Saccharum consensus genetic map from two interspecific crosses Crop Sci. 42 2002 270 283
28. R. Ming, Y.W. Wang, X. Dray, P.H. Moore, J.E. Irvine, and A.H. Paterson Molecular dissection of complex traits in autopolyploids: mapping QTLs affecting sugar yield and related traits in sugarcane Theor. Appl. Genet. 105 2002 332 345
29. P.H. Moore Integration of sucrose accumulation processes across hierarchical scales: towards developing an understanding of the gene-to-crop continuum Field Crops Res. 92 2005 119 135
30. F.T.S. Nogueira, V.E. DeRosa Jr., M. Menossi, E.C. Ulian, and P. Arruda RNA expression profiles and data mining of sugarcane response to low temperature Plant Physiol. 132 2003 1811 1824
31. M. Rossi, P.G. Araujo, F. Paulet, O. Garsmeur, V.M. Dias, H. Chen, M-A. Van Sluys, and A. D'Hont Genomic distribution and characterisation of EST-derived resistance gene analogs (RGAs) in sugarcane Mol. Genet. Gen. 269 2003 406 419
32. M. Schena, D. Shalon, R.W. Davis, and P.O. Brown Quantitative monitoring of gene expression patterns with a complementary DNA microarray Science 270 1995 467 470
33. A. Soares-Costa, L.M. Beltramini, O.H. Thiemann, and F. Henrique-Silva A sugarcane cystatin: recombinant expression, purification and antifungal activity Biochem. Biophys. Res. Co. 296 2002 1194 1199
34. J.P. Tomkins, Y. Yu, S.H. Miller, D.A. Frisch, S.S. Woo, and R.A. Wing A bacterial artificial chromosome library for sugarcane Theor. Appl. Genet. 99 1999 419 424
35. A.L. Vettore, F.R. da Silva, E.L. Kemper, and P. Arruda The libraries that made SUCEST Genet. Mol. Biol. 24 2001 1 7
36. D. Watt, A. McCormick, C. Govender, D. Carson, M. Cramer, B. Huckett, and F. Botha Increasing the utility of genomics in unravelling sucrose accumulation Field Crops Res. 92 2005 149 158
37. G.E. Welbaum, and F.C. Meinzer Compartmentation of solutes and water in developing sugarcane stalk tissue Plant Physiol. 93 1990 1147 1153
38. K.K. Wu, W. Burnquist, M.E. Sorrells, T.L. Tew, P.H. Moore, and S.D. Tanksley The detection and estimation of linkage in polyploids using single-dose restriction fragments Theor. Appl. Genet. 83 1992 294 300