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  • Effects of Mutagenic Agents on the DNA Sequence in Plants

    Closed for proposals

    Project Type

    Coordinated Research Project

    Project Code

    D24011

    CRP

    567

    Approved Date

    3 September 2003

    Status

    Closed

    Start Date

    15 September 2003

    Expected End Date

    22 March 2010

    Completed Date

    22 March 2010

    Description

    Physical, chemical and biological mutagenic agents cause genes to mutate at rates above the spontaneous baseline, thus producing a range of novel traits and broadening the genetic diversity of plants. The use of induced mutants in breeding has had a profound impact on world agriculture and more than 2300 new crop varieties, all carrying novel induced variation, have now been officially registered (IAEA Mutant Variety Database). This has all been achieved largely in the absence of knowledge of the precise changes induced at the DNA level. Indeed there still is very little understanding of the nature of the mutations induced by different mutagens. With the advent of molecular genetics and genomics, induced mutations are finding new applications in modern plant breeding. Reverse genetics and deletion library methodologies capable of discovering new genes and their modes of action are often underpinned by variation induced by both physical and chemical mutagens. However the efficiency of these new methods will be enhanced only when the type, frequency and distribution of mutations in a range of crop species can be predicted, and ideally directed.
    Today, with the range of technologies available to the scientific community to assay variation in DNA sequence and the availability of a vast amount of crop plant DNA sequence, including the complete sequences of both Arabidopsis and rice, these questions can now be approached. This Coordinated Research Project sets out to define the type, frequency and patterns of molecular changes induced by the range of physical and chemical mutagens in a range of crop species.

    Objectives

    This Coordinated Research Project aimed to understand the mechanism of mutation induction in plants and to quantify the types (base pair changes or deletions), frequencies (rates of change relative to mutagens dose) and patterns (induction of changes in different parts of the genome) of changes in DNA induced by a range of physical and chemical mutagens in a range of key crop plant species. Knowledge obtained is bound to assist Member States in enhancing crop breeding programmes through the application of targeted induced mutations, complementary genomic approaches and knowledge for the identification and selection of mutants of specific genes with the objective of increasing agricultural sustainability, food security and economic stability.

    Specific objectives

    1) Measure the microscopic characteristics of the spontaneous and induced mutation process at the molecular level using nucleic acid scanning methodologies at the whole genome/transcriptome level and mutation trap assays.

    2) Determine the existence of mutation-induced heterogeneities.

    3) Test if mutations are constrained by the structure of nucleic acids.

    4) Assay the effect of different doses of physical and chemical mutagens

    5) Compare different physical and chemical mutagens at equivalent doses

    6) Develop a knowledge base for enlightened use and application of mutation induction, including the descriptions and definitions of
    a) levels of DNA damage
    b) effects of repair systems in plants following mutagenic treatment
    c) types, frequencies, rates and patterns of molecular change
    induced by the range of physical and chemical mutagens for use in crop plant breeding,
    relative to background spontaneous mutation.

    7) An up-to-date review of the present understanding of the mechanisms involved in and the effects of mutation induction in plants

    Impact

    ? Enhancement of capacity in techniques to generate and analyse mutant germplasm in developing countries .
    ? Guidance tools on the use of appropriate mutagens to achieve mutation breeding objectives developed.
    ? Development of a repository of knowledge on mutagens and their efficacy.
    ? Two rice varieties suitable for diabetics and obesity patients commercialized.
    ? Mutant lines tolerant to postharvest physiological deterioration (PPD) in cassava identified.
    ? Drought tolerant soybean variants characterized

    Relevance

    1) Provide guidelines to Member States for the informed application of induced mutation to crop improvement;
    2) Characterize DNA damage, repair mechanisms and types of lesions in plants induced by treatment with physical and chemical mutagens.
    3) Promote efficient and safer crop improvement by defining thresholds for environmental protection;
    4) Produce and communicate research results that enhance the quality and relevance of mutation breeding;
    5) Foster implementation regional collaboration, knowledge transfer, technology, and genetic and molecular resources between all participating research groups for their mutual benefit;
    6) To produce guidelines and publish methods on the application induced mutations to various crops.
    7) Contribute to the development of enhanced germplasm with traits that are essential for crop breeding programmes in developing countries;

    CRP Publications

    Type

    scientific peer reviewed

    Year

    2008

    Description

    Janiak A, Kim MY, Van K, Lee S-H.(2008) Application of degenerate oligonucleotide primed PCR (DOP-PCR) for SNP discovery in soybean. Euphytica,162:249-256.

    Country/Organization

    Korea

    Type

    scientific peer reviewed

    Year

    2008

    Description

    Ceballos, H., T. Sánchez, K. Denyer, A. P. Tofi?o, E. A. Rosero, D. Dufour, A. Smith, N. Morante, J. C. Pérez, and B. Fahy. (2008). Induction and identification of a small-granule, high-amylose mutant in cassava (Manihot esculenta Crantz). Journal of Agricultural and Food Chemistry 56(16): 7215-7222

    Country/Organization

    Columbia

    Type

    scientific peer reviewed

    Year

    2007

    Description

    Jia Limeng, Zhang Zhizhuan, Shu Xiaoli, Li Chengdao, Wu Dianxing. (2007) Starch properties and structure of a wheat mutant high in resistant starch. The Open Agriculture Journal, 2007, 1:5-10.

    Country/Organization

    China

    Type

    scientific peer reviewed

    Year

    2008

    Description

    Van K, Jang HJ, Jang Y-E, Lee S-H. (2008) Regeneration of plants from EMS-treated immature embryo cultures in soybean [Glycine max (L.) Merr.]. J Crop Sci Biotechnol., 11:119-126.

    Country/Organization

    Korea

    Type

    Scientific paper at international conferences and symposia

    Description

    Ceballos, H., T. Sánchez, N. A. P. Tofin?o, A. Rosero, D. Doufor, A. M. Smith, K. Danyer, J.C. Pérez, N. Morante, F. Calle, Z. Lentini, M. Fregene and C. Mestres. (2007). Development and identification of cassava clones with special starch characteristics. Proceedings of the Starch Update Conference. Bangkok, Thailand. November 6-7.

    Country/Organization

    2007

    Type

    scientific peer reviewed

    Year

    2005

    Description

    Manova V. and L. Stoilov (2005). Repair of DNA double-strand breaks in eukaryotic genome. Genetics and Breeding, 34, 39-61.

    Country/Organization

    Bulgaria

    Type

    scientific (national) peer reviewed

    Year

    2005

    Description

    Cai CM, Van K, Kim MY, Lee S-H. (2005) Optimization of SNP genotyping assay with fluorescence polarization detection. Kor J Crop Sci., 50:361-367.

    Country/Organization

    Korea

    Type

    scientific peer reviewed

    Year

    2008

    Description

    C. A. Cullis, B. J. Vorster, C. Van Der Vyver and K. J. Kunert. (2008) Transfer of Genetic Material Between the Chloroplast and Nucleus: How is it Related to Stress in Plants? Annals of Botany doi: 10.1093/aob/mcn173.

    Country/Organization

    USA

    Type

    scientific (national) peer reviewed

    Year

    2004

    Description

    Liu L. X,, Wang J Zhao L.Sh, et al. (2004). Research progress in mutational effects of aerospace on crop and ground simulation on aerospace environment factors, Acta Agriculturae Nucleatae Sinica, 18:247-251.

    Country/Organization

    China

    Type

    Scientific paper at international conferences and symposia

    Year

    2008

    Description

    Georgieva M., V. Manova, L. Liu and L. Stoilov (2008) Induction of DNA damage by Li-ions and gamma rays in barley genome. Poster presentation IAEA-CN-167-075, FAO/IAEA International Symposium on Induced Mutations in Plants, Vienna, Austria.

    Country/Organization

    Bulgaria

    Type

    scientific (national) peer reviewed

    Year

    2004

    Description

    Dimitrova A., L. Stoilov and K. Gecheff. (2004) Loop organization of ribosomal DNA in barley. Compt. Rend. Acad. Bulg. Sci., 57, 57-60.

    Country/Organization

    Bulgaria

    Type

    scientific peer reviewed

    Year

    2008

    Description

    YANG Song-rui, LIU Lu-xiang, ZHAO Lin-shu. (2008) Current status and prospective of crop improvement for low phytic acid content, Journal of Plant Genetic Resources, 9: 263-265.

    Country/Organization

    China

    Type

    Scientific paper at international conferences and symposia

    Year

    2005

    Description

    Zhao Linshu,Liu Luxiang,Guo Huijun,et al. (2005). Production of mutants with high inorganic phosphorus content in seeds by germplasm reselection and mutation techniques in wheat. Paper Abstracts Collections of National Workshop on Crop Biotechnology and Mutation Techniques, Nov 7-9, 2005, Fujian Prov. p130.

    Country/Organization

    China

    Type

    scientific peer reviewed

    Year

    2007

    Description

    Caetano-Anollés, G. (2007) Evolution of genome size in the grasses. Crop Science 45: 1809-1816

    Country/Organization

    USA

    Type

    scientific (Agency) peer reviewed

    Year

    2007

    Description

    Guo, H.J, L.X. Liu, W.B. Han, S.R. Zhao, L. S. Zhao, L. Sui, K. Zhao, F.Q. Kong, J. Wang. Biological effects of high energy 7li ion beams implantation on wheat. Plant Mutation Reports, 2007,1(3):31-35.

    Type

    scientific peer reviewed

    Year

    2006

    Description

    Stoilova Ts., A. Dimitrova, Ts. Angelova and K. Gecheff (2006). Assessment of the genetic diversity in barley mutant lines using biochemical markers. Genetics and Breeding, 35, 3-10.

    Country/Organization

    Bulgaria

    Type

    scientific peer reviewed

    Year

    2008

    Description

    Ceballos, H., T. Sánchez, K. Denyer, A. P. Tofi?o, E. A. Rosero, D. Dufour, A. Smith, N. Morante, J. C. Pérez, and B. Fahy. (2008). Induction and identification of a small-granule, high-amylose mutant in cassava (Manihot esculenta Crantz). Journal of Agricultural and Food Chemistry 56(16): 7215-7222

    Country/Organization

    USA

    Type

    scientific peer reviewed

    Year

    2005

    Description

    Liu Luxiang, Zhao Linshu, Guo Huijun et al (2005). Study on mutagenic effects of mixed particle field irradiation in winter wheat. Science Technology and Engineering, 22:1641-1644

    Country/Organization

    China

    Type

    scientific (national) peer reviewed

    Year

    2005

    Description

    Liu Luxiang,Han Weibo, Guo Huijun, et al (2005). Cytological effects of mixed particle field irradiation in wheat. Acta Agriculturae Nucleatae Sinica, 19:1-5.

    Country/Organization

    China

    Type

    scientific (national) peer reviewed

    Year

    2007

    Description

    Liu Lu-xiang, Zhao Lin-shu, Guo Hui-jun. (2007) Current status and perspective outlook of space induced mutation breeding in crop plants, Review of China Agricultural Science and Technology, 9:26-29.

    Country/Organization

    China

    Type

    scientific peer reviewed

    Year

    2007

    Description

    Ceballos, H., Sánchez, T.; Morante, N.; Fregene, M.; Dufour, D.; Smith, A.M.; Denyer, K.; Pérez, J.C.; Calle, F.; Mestres, C. Discovery of an amylose-free starch mutant in cassava (Manihot esculenta Crantz). Journal of Agricultural and Food Chemistry 2007, 55(18), 7469-7476.

    Country/Organization

    USA

    Type

    scientific peer reviewed

    Year

    2007

    Description

    Xin Qing-guo, Liu Lu-xiang, Guo Hui-jun, Zhao Lin-shu, Yu Yuan-jie , Zhao Kui, Sui Li, Kong Fu-quan, Zhao Shi-rong. (2007) SSR Analysis of M1 generation variation of dry seeds implanted by 7Li ion beam in wheat, Journal of Triticeae Crops, 27:560-564.

    Country/Organization

    China

    Type

    Scientific paper at international conferences and symposia

    Year

    2008

    Description

    Stoilov L. and K.Gecheff (2008) Restriction endonucleases as a tool for in vivo induction of chromosomal and DNA damage in barley genome. Invited lecture IAEA-CN-167-041 FAO/IAEA International Symposium on Induced Mutations in Plants, Vienna, Austria.

    Country/Organization

    Bulgaria

    Type

    Scientific paper at international conferences and symposia

    Year

    2008

    Description

    Gecheff, K., L. Stoilov, V. Manova and G. Bonchev (2008) Position-specific effects in the action of mutagenic agents on the chromosomes of barley (Hordeum vulgare L.) Poster presentation IAEA-CN-167-046, FAO/IAEA International Symposium on Induced Mutations in Plants, Vienna, Austria.

    Country/Organization

    Bulgaris

    Type

    scientific peer reviewed

    Year

    2007

    Description

    Shu XL, Gao JK, Jia LM, Song YL, Wu DX. (2007) The influence of chain length of amylopectin on resistant starch in rice (Oryza sativa L.). Starch, 59: 504-509.

    Country/Organization

    China

    Type

    scientific peer reviewed

    Year

    2006

    Description

    Kavitha M, Bauer P, Sharada MS, Al-Hammadi AS, Sharma R (2006) Genetic characterization of the polycotyledon locus in tomato. Theoretical and Applied Genetics 113: 673-683.

    Country/Organization

    India

    Type

    Scientific paper at international conferences and symposia

    Year

    2008

    Description

    Manova, V., M. Georgieva, B. Borisov, B. Stoilova, K. Gecheff and L. Stoilov Genomic and gene-specific induction and repair of DNA damage in barley. Invited lecture IAEA-CN-167-056 FAO/IAEA International Symposium on Induced Mutations in Plants, Vienna, Austria.

    Country/Organization

    Bulgaria

    Type

    scientific peer reviewed

    Year

    2006

    Description

    Shu XL, Jiao GA, Fitzgerald M, Yang CZ, Shu QY, Wu DX. (2006) Starch structure and digestibility of rice high in resistant starch. Starch, 58: 411-417.

    Country/Organization

    China

    Type

    scientific peer reviewed

    Year

    2007

    Description

    Martin N, EA Ruedi, R LeDuc, F-J Sun and G Caetano-Anollés (2007) Geneinterleaving patterns of synteny in the Saccharomyces cerevisiae genome: are they proof of an ancient genome duplication event? Biology Direct 2: 23.

    Country/Organization

    USA

    Type

    scientific peer reviewed

    Year

    2005

    Description

    Kim MY, Van K, Lestari P, Moon J-K, Lee S-H. (2005) SNP identification and SNAP marker development for a GmNARK gene controlling supernodulation in soybean. Theor Appl Genet.,110:1003-1010.

    Country/Organization

    Korea

    Type

    scientific peer reviewed

    Year

    2006

    Description

    Zuo XX, Zheng T, Shu XL, Shu QY, Wu DX. (2006) Advances in screening and characterization study of rice endosperm mutants. Journal of Nuclear Agricultural Science, 20:118-122.

    Country/Organization

    China

    Type

    Scientific paper at international conferences and symposia

    Year

    2005

    Description

    Guo Huijun, Liu Luxiang, Zhao Shirong et al (2005) .Biological effects of 43MeV 7Li ion beam implantation in wheat Paper Abstracts Collections of National Workshop on Crop Biotechnology and Mutation Techniques, Nov 7-9, 2005, Fujian Prov. p163.

    Country/Organization

    China

    Type

    book

    Year

    2006

    Description

    Wu, DX (ed). (2006) Functional rice research and utilization. China Metrology Publishing House.

    Country/Organization

    China

    Type

    scientific (national) peer reviewed

    Year

    2005

    Description

    Liu Luxiang, Guo Huijun, Zhao Linshu, Zhao Kui, Zhao Shirong, Sui Li, Kong Fuquan.Bio-effects of 7Li ion beams irradiation on wheat, 2005 Annual report for Beijing National Tandem Accelerator Laboratory, Beijing: Atomic Energy Press, 2007, p104-105

    Country/Organization

    China

    Type

    book

    Year

    2009

    Description

    Wu, DX and Shu XL (eds). (2009) Rice starch quality research and utilization. China Agriculture Publishing House.

    Country/Organization

    China

    Type

    scientific peer reviewed

    Year

    2009

    Description

    Dimitrova A., E. Todorovska, N. Christov, L. Stoilov, A. Atanassov and K. Gechef. (2009) Molecular characterization of ionizing radiation-induced mutational alterations in barley. Genetics and Breeding, in press.

    Country/Organization

    Bulgaria

    Type

    book chapter

    Year

    2007

    Description

    Ceballos, H., M. Fregene, J. C. Pérez, N. Morante and F. Calle. Cassava Genetic Improvement (2007). In: Breeding Major Food Staples (M.S. Kang and P.M. Priyadarshan eds.). p. 365-391, Blackwell Publishing. Ames, IA. USA

    Country/Organization

    Columbia

    Type

    scientific (national) peer reviewed

    Year

    2006

    Description

    Han W B, Liu L X, Guo H J, Zhao L S, Li J C, Zhang S P, Wang C S, Zhao S R. SSR analysis on M1 variation of wheat irradiated by mixed high energy particle field. Acta Agriculture Nucleatae Sinica, 2006, 20: 165-168.

    Country/Organization

    China

    Type

    Scientific paper at international conferences and symposia

    Year

    2008

    Description

    Manova, V., M. Georgieva, B. Borisov, B. Stoilova, K. Gecheff and L. Stoilov (2008) Genomic and gene-specific induction and repair of DNA damage in barley. Invited lecture IAEA-CN-167-056 FAO/IAEA International Symposium on Induced Mutations in Plants, Vienna, Austria.

    Country/Organization

    Bulgaria

    Type

    Scientific paper at international conferences and symposia

    Year

    2008

    Description

    Dimitrova A., E. Todorovska, N. Hristov, K. Gecheff, Stoilov L. and A. Atanassov (2008) Molecular analysis of ionizing radiation induced genetic variability in barley. Poster presentation IAEA-CN-167-076, FAO/IAEA International Symposium on Induced Mutations in Plants, Vienna, Austria.

    Country/Organization

    Bulgaria

    Type

    scientific (national) peer reviewed

    Year

    2008

    Description

    GUO Hui-jun, LIU Lu-xiang, HAN Wei-bo, ZHAO Shi-rong, LI Jia-cai, ZHAO Lin-shu, WANG Jing, Mutagenic Effects of Mixed Particle Field Irradiation on Wheat. Scientia Agricultura Sinica, 2008, 41(3): 654-660.

    Country/Organization

    China

    Type

    scientific peer reviewed

    Year

    2006

    Description

    Gecheff K. I. (2006) Inversion-derived cytological marking of the chromosome complement of barley (Hordeum vulgare L.). Genetics and Breeding, 35, 19-24.

    Country/Organization

    Bulgaria

    Type

    scientific peer reviewed

    Year

    2006

    Description

    Yang CZ, Shu XL, Zhang LL, Wang XY, Zhao HJ, Ma CX, Wu DX. (2006) Starch properties of mutant rice high in resistant starch. Journal of Agricultural and Food Chemistry, 54: 523-528.

    Country/Organization

    China

    Type

    Scientific paper at international conferences and symposia

    Year

    2005

    Description

    Guo Huijun,Liu Luxiang,Zhao Linshu (2005).DNA damages induced by mixed particle field irradiation . Paper Abstracts Collections of National Workshop on Crop Biotechnology and Mutation Techniques, Nov 7-9, 2005, Fujian Prov. p198.

    Country/Organization

    China

    Type

    Scientific paper at international conferences and symposia

    Year

    2008

    Description

    Sanchez, T., A. Rosero, A.P. Tofi?o, K. Denyer, A. Smith, H. Ceballos, N. Morante, and J.C. Pérez. (2008). Induction and identification of useful mutations for root quality traits in cassava. FAO/IAEA International Symposium on Induced Mutations in Plants. 12-15 August, Vienna, Austria. p. 107.

    Country/Organization

    Columbia

    Type

    scientific peer reviewed

    Year

    2008

    Description

    Georgieva M. and L. Stoilov (2008) Assessment of DNA strand breaks induced by bleomycin in barley by the comet assay. Environmental and Molecular Mutagenesis, 49, 381-387.

    Country/Organization

    Bulgaria

    Type

    scientific peer reviewed

    Year

    2008

    Description

    HU Yan-ling, LIU Lu-xiang, GUO Hui-jun, ZHAO Lin-shu, ZHAO Shi-rong, SSR analysis of dwarf mutants derived from mixed particle field irradiation in wheat. Journal of Nuclear Agricultural Sciences, 2008, 22(4): 399-403.

    Country/Organization

    China

    Type

    book chapter

    Year

    2007

    Description

    Van K, Kim MY, Lee S-H. (2007) Genomics of root nodulation in soybean. In Genomics Assisted Crop Improvement, Vol 2. Genomics Applications in Crops Edited by: Varshney RK, Tuberosa R. Springer. pp425-442.

    Country/Organization

    Korea

    Type

    scientific peer reviewed

    Year

    2004

    Description

    Van K, Hwang E.-Y, Kim MY, Kim Y.-H, Cho YI, Cregan PB, Lee S.-H. (2004) Discovery of single nucleotide polymorphisms in soybean using primers designed from ESTs. Euphytica,139:147-157.

    Country/Organization

    Korea

    Type

    scientific peer reviewed

    Year

    2006

    Description

    Wu W, Liu X, Shu XL, Wu DX. (2006) Progress in the study of resistant starch and functional rice for prevention of diabetes and hyperlipidemia. Journal of Nuclear Agricultural Science, 20:60-63.

    Country/Organization

    China

    Type

    Scientific paper at international conferences and symposia

    Year

    2005

    Description

    Manova V., Gecheff K. and Stoilov L. (2005) Induction and repair of bleomycin-induced DNA damage in barley genome- Abstract, Keystone Symposia “Genome Instability and Repair (C2)”, Sagebrush Inn and Conference Center, New Mexico, USA.

    Country/Organization

    Bulgaria

    Type

    scientific peer reviewed

    Year

    2006

    Description

    Manova, V., K. Gecheff and L. Stoilov (2006) Efficient repair of bleomycin-induced double-strand breaks in barley ribosomal genes, Mutation Research, 601, 179-190.

    Country/Organization

    Bulgaria

    Type

    scientific peer reviewed

    Year

    2009

    Description

    Gecheff K., V. Manova, G. Bonchev, M. Kitanova, M. Vlahova, L. Stoilov. (2009) Position-specific effects in the action of mutagenic agents on the chromosomes of barley (Hordeum vulgare L.) Genetics and Breeding, in press.

    Country/Organization

    Bulgaria

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