Journal Menu
- About this Journal
- Abstracting and Indexing
- Aims and Scope
- Article Processing Charges
- Articles in Press
- Author Guidelines
- Bibliographic Information
- Citations to this Journal
- Contact Information
- Editorial Board
- Editorial Workflow
- Free eTOC Alerts
- Publication Ethics
- Reviewers Acknowledgment
- Submit a Manuscript
- Subscription Information
- Table of Contents
International Journal of Plant Genomics
Volume 2011 (2011), Article ID 314829, 13 pages
doi:10.1155/2011/314829
Review Article
Mutagenesis as a Tool in Plant Genetics, Functional Genomics, and Breeding
1Department of Plant and Environmental Sciences, Göteborg University, 40530 Göteborg, Sweden
2CropTailorAB, Erik Dahlbergsgatan 11A, 41126 Göteborg, Sweden
3Department of Chemical and Biological Engineering, Chalmers University of Technology, 41296 Göteborg, Sweden
Received 30 August 2011; Revised 2 December 2011; Accepted 15 December 2011
Academic Editor: Manuel Talon
Copyright © 2011 Per Sikora et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Linked References
- P. Gepts, “Origins of plant agriculture and major crop plants,” in OUR FRAGILE WORLD: Challenges and Opportunities for Sustainable Development, pp. 629–637, 2001.
- P. Gepts, “A comparison between crop domestication, classical plant breeding, and genetic engineering,” Crop Science, vol. 42, no. 6, pp. 1780–1790, 2002. View at Scopus
- L. T. Evans, Crop Evolution, Adaptation, and Yield, vol. 11, Cambridge University Press, New York, NY, USA, 1993.
- G. C. Hillman and M. S. Davies, “Domestication rates in wild-type wheats and barley under primitive cultivation,” Biological Journal of the Linnean Society, vol. 39, no. 1, pp. 39–78, 1990. View at Scopus
- C. Darwin, On the Origin of Species by Means of Natural Selection, vol. 9, J. Murray, London, UK, 1st edition, 1859.
- C. Darwin, The Variation of Animals and Plants under Domestication, J. Murray, London, UK, 1868.
- M. J. Chrispeels and D. E. Sadava, Plants, Genes, and Crop Biotechnology, vol. 24, Jones and Bartlett, Boston, Mass, USA, 2nd edition, 2003.
- M. J. Balick, Plants, People, and Culture: The Science of Ethnobotany, vol. 9, Scientific American Library, New York, NY, USA, 1997.
- J. Smartt and N. W. Simmonds, Evolution of Crop Plants, Longman Scientific and Technical, Harlow, UK; Wiley, New York, NY, USA, 2nd edition, 1995.
- H. J. Muller, “Artificial transmutation of the gene,” Science, vol. 66, no. 1699, pp. 84–87, 1927. View at Scopus
- L. J. Stadler, “Mutations in barley induced by X-rays and radium,” Science, vol. 68, no. 1756, pp. 186–187, 1928. View at Scopus
- L. J. Stadler, “Genetic effects of X-Rays in Maize,” Proceedings of the National Academy of Sciences of the United States of America, vol. 14, no. 1, pp. 69–75, 1928.
- C. Auerbach and J. M. Robson, “Chemical production of mutations,” Nature, vol. 157, no. 3984, p. 302, 1946. View at Scopus
- C. Auerbach, “Chemical mutagenesis,” Biological reviews of the Cambridge Philosophical Society, vol. 24, no. 3, pp. 355–391, 1949.
- M. Westergaard, “Chemical mutagenesis in relation to the concept of the gene,” Experientia, vol. 13, no. 6, pp. 224–234, 1957. View at Publisher · View at Google Scholar · View at Scopus
- H. Leung, C. Wu, M. Baraoidan, et al., “Deletion mutants for functional genomics: progress in phenotyping, sequence assignment, and database development,” in Rice Genetics, D. Brar, B. Hardy, and G. Khush, Eds., vol. 4, pp. 239–251, International Rice Research Institute, 2001.
- J. L. Wu, C. Wu, C. Lei et al., “Chemical- and irradiation-induced mutants of indica rice IR64 for forward and reverse genetics,” Plant Molecular Biology, vol. 59, no. 1, pp. 85–97, 2005. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
- B. J. Till, J. Cooper, T. H. Tai et al., “Discovery of chemically induced mutations in rice by TILLING,” BMC Plant Biology, vol. 7, article 19, 2007. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
- B. J. Till, S. H. Reynolds, C. Weil et al., “Discovery of induced point mutations in maize genes by TILLING,” BMC Plant Biology, vol. 4, article 12, 2004. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
- FAO-IAEA, “Mutant variety database,” 2011, http://mvgs.iaea.org/AboutMutantVarieties.aspx.
- T. Wang, C. Uauy, B. Till, and C.-M. Liu, “TILLING and associated technologies,” Journal of Integrative Plant Biology, vol. 52, no. 11, pp. 1027–1030, 2010.
- A. Chawade, P. Sikora, M. Bräutigam et al., “Development and characterization of an oat TILLING-population and identification of mutations in lignin and beta-glucan biosynthesis genes,” BMC Plant Biology, vol. 10, p. 86, 2010. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
- D. G. Caldwell, N. McCallum, P. Shaw, G. J. Muehlbauer, D. F. Marshall, and R. Waugh, “A structured mutant population for forward and reverse genetics in Barley (Hordeum vulgare L.),” Plant Journal, vol. 40, no. 1, pp. 143–150, 2004. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
- C. M. McCallum, L. Comai, E. A. Greene, and S. Henikoff, “Targeted screening for induced mutations,” Nature Biotechnology, vol. 18, no. 4, pp. 455–457, 2000. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
- T. Colbert, B. J. Till, R. Tompa et al., “High-throughput screening for induced point mutations,” Plant Physiology, vol. 126, no. 2, pp. 480–484, 2001. View at Publisher · View at Google Scholar
- J. A. Perry, T. L. Wang, T. J. Welham et al., “A TILLING reverse genetics tool and a web-accessible collection of mutants of the legume Lotus japonicus,” Plant Physiology, vol. 131, no. 3, pp. 866–871, 2003. View at Publisher · View at Google Scholar · View at PubMed
- J. Perry, A. Brachmann, T. Welham et al., “TILLING in Lotus japonicus identified large allelic series for symbiosis genes and revealed a bias in functionally defective ethyl methanesulfonate alleles toward glycine replacements,” Plant Physiology, vol. 151, no. 3, pp. 1281–1291, 2009. View at Publisher · View at Google Scholar · View at PubMed
- B. J. Till, S. H. Reynolds, E. A. Greene et al., “Large-scale discovery of induced point mutations with high-throughput TILLING,” Genome Research, vol. 13, no. 3, pp. 524–530, 2003. View at Publisher · View at Google Scholar · View at PubMed
- A. J. Slade, S. I. Fuerstenberg, D. Loeffler, M. N. Steine, and D. Facciotti, “A reverse genetic, nontransgenic approach to wheat crop improvement by TILLING,” Nature Biotechnology, vol. 23, no. 1, pp. 75–81, 2005. View at Publisher · View at Google Scholar · View at PubMed
- K. Triques, B. Sturbois, S. Gallais et al., “Characterization of Arabidopsis thaliana mismatch specific endonucleases: application to mutation discovery by TILLING in pea,” Plant Journal, vol. 51, no. 6, pp. 1116–1125, 2007. View at Publisher · View at Google Scholar · View at PubMed
- J. L. Cooper, B. J. Till, R. G. Laport et al., “TILLING to detect induced mutations in soybean,” BMC Plant Biology, vol. 8, article 9, 2008. View at Publisher · View at Google Scholar · View at PubMed
- T. Suzuki, M. Eiguchi, T. Kumamaru et al., “MNU-induced mutant pools and high performance TILLING enable finding of any gene mutation in rice,” Molecular Genetics and Genomics, vol. 279, no. 3, pp. 213–223, 2008. View at Publisher · View at Google Scholar · View at PubMed
- V. Talamè, R. Bovina, M. C. Sanguineti, R. Tuberosa, U. Lundqvist, and S. Salvi, “TILLMore, a resource for the discovery of chemically induced mutants in barley,” Plant Biotechnology Journal, vol. 6, no. 5, pp. 477–485, 2008. View at Publisher · View at Google Scholar · View at PubMed
- N. Wang, Y. Wang, F. Tian et al., “A functional genomics resource for Brassica napus: development of an EMS mutagenized population and discovery of FAE1 point mutations by TILLING,” New Phytologist, vol. 180, no. 4, pp. 751–765, 2008. View at Publisher · View at Google Scholar · View at PubMed
- Z. Xin, M. Li Wang, N. A. Barkley et al., “Applying genotyping (TILLING) and phenotyping analyses to elucidate gene function in a chemically induced sorghum mutant population,” BMC Plant Biology, vol. 8, article 103, 2008. View at Publisher · View at Google Scholar · View at PubMed
- C. Dong, C. Dalton-Morgan, K. Vincent, and P. Sharp, “A modified TILLING method for wheat breeding,” Plant Genetic, vol. 2, no. 1, pp. 39–47, 2009.
- A. L. F. Gady, F. W. K. Hermans, M. H. B. J. Van De Wal, E. N. Van Loo, R. G. F. Visser, and C. W. B. Bachem, “Implementation of two high through-put techniques in a novel application: detecting point mutations in large EMS mutated plant populations,” Plant Methods, vol. 5, no. 1, article no. 13, 2009. View at Publisher · View at Google Scholar · View at PubMed
- S. Gottwald, P. Bauer, T. Komatsuda, U. Lundqvist, and N. Stein, “TILLING in the two-rowed barley cultivar 'Barke' reveals preferred sites of functional diversity in the gene HvHox1,” BMC Research Notes, vol. 2, article 258, 2009. View at Publisher · View at Google Scholar · View at PubMed
- E. Himelblau, E. J. Gilchrist, K. Buono et al., “Forward and reverse genetics of rapid-cycling Brassica oleracea,” Theoretical and Applied Genetics, vol. 118, no. 5, pp. 953–961, 2009. View at Publisher · View at Google Scholar · View at PubMed
- C. Le Signor, V. Savois, G. Aubert et al., “Optimizing TILLING populations for reverse genetics in Medicago truncatula,” Plant Biotechnology Journal, vol. 7, no. 5, pp. 430–441, 2009. View at Publisher · View at Google Scholar · View at PubMed
- B. Martín, M. Ramiro, J. M. Martínez-Zapater, and C. Alonso-Blanco, “A high-density collection of EMS-induced mutations for TILLING in Landsberg erecta genetic background of Arabidopsis,” BMC Plant Biology, vol. 9, article 147, 2009. View at Publisher · View at Google Scholar · View at PubMed
- C. Uauy, F. Paraiso, P. Colasuonno et al., “A modified TILLING approach to detect induced mutations in tetraploid and hexaploid wheat,” BMC Plant Biology, vol. 9, article 115, 2009. View at Publisher · View at Google Scholar · View at PubMed
- S. M. Bush and P. J. Krysan, “iTILLING: a personalized approach to the identification of induced mutations in Arabidopsis,” Plant Physiology, vol. 154, no. 1, pp. 25–35, 2010. View at Publisher · View at Google Scholar · View at PubMed
- F. Dahmani-Mardas, C. Troadec, A. Boualem, et al., “Engineering melon plants with improved fruit shelf life using the TILLING approach,” PLoS One, vol. 5, no. 12, article e15776, 2010.
- M. Dalmais, J. Schmidt, C. Le Signor et al., “UTILLdb, a Pisum sativum in silico forward and reverse genetics tool,” Genome Biology, vol. 9, no. 2, article R43, 2008. View at Publisher · View at Google Scholar · View at PubMed
- S. Minoia, A. Petrozza, O. D'Onofrio et al., “A new mutant genetic resource for tomato crop improvement by TILLING technology,” BMC Research Notes, vol. 3, article no. 69, 2010. View at Publisher · View at Google Scholar · View at PubMed
- F. Sestili, E. Botticella, Z. Bedo, A. Phillips, and D. Lafiandra, “Production of novel allelic variation for genes involved in starch biosynthesis through mutagenesis,” Molecular Breeding, vol. 25, no. 1, pp. 145–154, 2010. View at Publisher · View at Google Scholar
- P. Stephenson, D. Baker, T. Girin et al., “A rich TILLING resource for studying gene function in Brassica rapa,” BMC Plant Biology, p. 10, article 62, 2010. View at Publisher · View at Google Scholar · View at PubMed
- J. E. Knoll, M. L. Ramos, Y. Zeng, et al., “TILLING for allergen reduction and improvement of quality traits in peanut (Arachis hypogaea L.),” BMC Plant Biology, vol. 11, article 81, 2011.
- W. Sabetta, V. Alba, A. Blanco, and C. Montemurro, “SunTILL: a TILLING resource for gene function analysis in sunflower,” Plant Methods, vol. 7, no. 1, p. 20, 2011. View at Publisher · View at Google Scholar · View at PubMed
- S. Winkler, A. Schwabedissen, D. Backasch et al., “Target-selected mutant screen by TILLING in Drosophila,” Genome Research, vol. 15, no. 5, pp. 718–723, 2005. View at Publisher · View at Google Scholar · View at PubMed
- B. J. Till, T. Zerr, L. Comai, and S. Henikoff, “A protocol for TILLING and Ecotilling in plants and animals,” Nature Protocols, vol. 1, no. 5, pp. 2465–2477, 2006. View at Publisher · View at Google Scholar · View at PubMed
- C. Raghavan, M. E. B. Naredo, H. Wang et al., “Rapid method for detecting SNPs on agarose gels and its application in candidate gene mapping,” Molecular Breeding, vol. 19, no. 2, pp. 87–101, 2007. View at Publisher · View at Google Scholar
- C. N. Gundry, J. G. Vandersteen, G. H. Reed, R. J. Pryor, J. Chen, and C. T. Wittwer, “Amplicon melting analysis with labeled primers: a closed-tube method for differentiating homozygotes and heterozygotes,” Clinical Chemistry, vol. 49, no. 3, pp. 396–406, 2003. View at Publisher · View at Google Scholar
- C. T. Wittwer, G. H. Reed, C. N. Gundry, J. G. Vandersteen, and R. J. Pryor, “High-resolution genotyping by amplicon melting analysis using LCGreen,” Clinical Chemistry, vol. 49, no. 6, part 1, pp. 853–860, 2003. View at Publisher · View at Google Scholar
- C. Dong, K. Vincent, and P. Sharp, “Simultaneous mutation detection of three homoeologous genes in wheat by high resolution melting analysis and mutation Surveyor,” BMC Plant Biology, vol. 9, article 143, 2009. View at Publisher · View at Google Scholar · View at PubMed
- T. Ishikawa, Y. Kamei, S. Otozai et al., “High-resolution melting curve analysis for rapid detection of mutations in a Medaka TILLING library,” BMC Molecular Biology, vol. 11, article 70, 2010. View at Publisher · View at Google Scholar · View at PubMed
- D. Van Den Boom and M. Ehrich, “Discovery and identification of sequence polymorphisms and mutations with MALDI-TOF MS,” Methods in Molecular Biology, vol. 366, pp. 287–306, 2007. View at Publisher · View at Google Scholar
- Y. Fu, S. Xu, C. Pan, M. Ye, H. Zou, and B. Guo, “A matrix of 3,4-diaminobenzophenone for the analysis of oligonucleotides by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry,” Nucleic Acids Research, vol. 34, no. 13, article e94, 2006. View at Publisher · View at Google Scholar · View at PubMed · View at Scopus
- D. Rigola, J. van Oeveren, A. Janssen et al., “High-throughput detection of induced mutations and natural variation using KeyPoint™ technology,” PLoS ONE, vol. 4, no. 3, article se4761, 2009. View at Publisher · View at Google Scholar · View at PubMed
- H. Tsai, T. Howell, R. Nitcher et al., “Discovery of rare mutations in populations: tilling by sequencing,” Plant Physiology, vol. 156, no. 3, pp. 1257–1268, 2011. View at Publisher · View at Google Scholar · View at PubMed
- B. A. Flusberg, D. R. Webster, J. H. Lee et al., “Direct detection of DNA methylation during single-molecule, real-time sequencing,” Nature Methods, vol. 7, no. 6, pp. 461–465, 2010. View at Publisher · View at Google Scholar · View at PubMed
- H. M. Lam, X. Xu, X. Liu et al., “Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection,” Nature Genetics, vol. 42, no. 12, pp. 1053–1059, 2010. View at Publisher · View at Google Scholar · View at PubMed
- J. Lai, R. Li, X. Xu et al., “Genome-wide patterns of genetic variation among elite maize inbred lines,” Nature Genetics, vol. 42, no. 11, pp. 1027–1030, 2010. View at Publisher · View at Google Scholar · View at PubMed
- E. C. Dierking and K. D. Bilyeu, “New sources of soybean seed meal and oil composition traits identified through TILLING,” BMC Plant Biology, vol. 9, article 89, 2009. View at Publisher · View at Google Scholar · View at PubMed
- E. O. Speer, “A method of retaining phloroglucinol proof of lignin,” Stain Technology, vol. 62, no. 4, pp. 279–280, 1987.
- K. Iiyama and A. F. A. Wallis, “An improved acetyl bromide procedure for determining lignin in woods and wood pulps,” Wood Science and Technology, vol. 22, no. 3, pp. 271–280, 1988. View at Publisher · View at Google Scholar
- V. Vivekanand, A. Chawade, M. Larsson, A. Larsson, and O. Olsson, “Identification and qualitative characterisation of high and low lignin lines from an oat TILLING population,” In preparation.
- B. V. McCleary and R. Codd, “Measurement of (1 → 3),(1 → 4)-β-D-glucan in barley and oats: a streamlined enzymic procedure,” Journal of the Science of Food and Agriculture, vol. 55, no. 2, pp. 303–312, 1991.
- P. Sikora, S. Tosh, Y. Brummer, and O. Olsson, “Identification of high ß-glucan oat lines and chemical characterisation of ß-glucans,” In Preparation.
- L. S. Barkawi, Y. Y. Tam, J. A. Tillman, J. Normanly, and J. D. Cohen, “A high-throughput method for the quantitative analysis of auxins,” Nature Protocols, vol. 5, no. 10, pp. 1609–1618, 2010. View at Publisher · View at Google Scholar · View at PubMed
- W. D. Reiter, C. Chapple, and C. R. Somerville, “Mutants of Arabidopsis thaliana with altered cell wall polysaccharide composition,” Plant Journal, vol. 12, no. 2, pp. 335–345, 1997. View at Publisher · View at Google Scholar
- J. Junhyun, S.-Y. Park, M.-H. Chi, et al., “High throughput phenotype screening pipeline for functional genomics in Magnaporthe oryzae,” Protocol Exchange, 2007. View at Publisher · View at Google Scholar
- D. W. Parry, P. Jenkinson, and L. McLeod, “Fusarium ear blight (scab) in small grain cereals—a review,” Plant Pathology, vol. 44, no. 2, pp. 207–238, 1995.
- M. McMullen, R. Jones, and D. Gallenberg, “Scab of wheat and barley: a re-emerging disease of devastating impact,” Plant Disease, vol. 81, no. 12, pp. 1340–1348, 1997.
- W. Spielmeyer, M. H. Ellis, and P. M. Chandler, “Semidwarf (sd-1), “green revolution” rice, contains a defective gibberellin 20-oxidase gene,” Proceedings of the National Academy of Sciences of the United States of America, vol. 99, no. 13, pp. 9043–9048, 2002. View at Publisher · View at Google Scholar · View at PubMed
- T. Singer, Y. Fan, H. S. Chang, T. Zhu, S. P. Hazen, and S. P. Briggs, “A high-resolution map of Arabidopsis recombinant inbred lines by whole-genome exon array hybridization.,” PLoS Genetics, vol. 2, no. 9, article e144, 2006. View at Publisher · View at Google Scholar · View at PubMed
- J. D. Edwards, J. Janda, M. T. Sweeney et al., “Development and evaluation of a high-throughput, low-cost genotyping platform based on oligonucleotide microarrays in rice,” Plant Methods, vol. 4, no. 1, article 13, 2008. View at Publisher · View at Google Scholar · View at PubMed
- X. Huang, Q. Feng, Q. Qian et al., “High-throughput genotyping by whole-genome resequencing,” Genome Research, vol. 19, no. 6, pp. 1068–1076, 2009. View at Publisher · View at Google Scholar · View at PubMed
- K. Schneeberger, S. Ossowski, C. Lanz et al., “SHOREmap: simultaneous mapping and mutation identification by deep sequencing,” Nature Methods, vol. 6, no. 8, pp. 550–551, 2009. View at Publisher · View at Google Scholar · View at PubMed
- R. S. Austin, D. Vidaurre, G. Stamatiou, et al., “Next-generation mapping of Arabidopsis genes,” Plant Journal, vol. 67, no. 4, pp. 715–725, 2011.
- L. Feiz, J. M. Martin, and M. J. Giroux, “Creation and functional analysis of new Puroindoline alleles in Triticum aestivum,” Theoretical and Applied Genetics, vol. 118, no. 2, pp. 247–257, 2009. View at Publisher · View at Google Scholar · View at PubMed
- K. Semagn, Å. Bjørnstad, and M. N. Ndjiondjop, “An overview of molecular marker methods for plants,” African Journal of Biotechnology, vol. 5, no. 25, pp. 2540–2568, 2006.