Haplotype analysis of molecular markers linked to QTLs controlling Iron content in rice grains

Paper Details

Research Paper 01/05/2015
Views (508)
current_issue_feature_image
publication_file

Haplotype analysis of molecular markers linked to QTLs controlling Iron content in rice grains

Shahrbanu Abutalebi, Mohammad-Hossein Fotokian, Mehrshad Zeinalabedini
J. Biodiv. & Environ. Sci. 6(5), 391-398, May 2015.
Copyright Statement: Copyright 2015; The Author(s).
License: CC BY-NC 4.0

Abstract

Iron deficiency affects 2 billion people currently and the number is increasing. Biofortification of rice is one of the best approaches for solution this problem. Molecular marker techniques can greatly improve the efficacy of breeding programs to improve grain iron content and bioavailability in major staple crops such as rice. In the current study, the haplotype variation of three loci controlling iron content was evaluated using 50 genotypes and 14 associated microsatellite markers. The grain iron content analysis of a collection of 50 rice genotypes showed large variation from 9.06 (Sepidrud cultivar) to 50.55 (Mehr cultivar) mg.kg-1 indicating the existence of genetic potential to increase the content of this micronutrient in rice grain. Based on the results of genotyping RM276 indicated highest polymorphism information content (0.83). The haplotype diversity analysis showed, allelic pattern of 132-176-200 bp in the Norin22 and Shahak cultivars on chromosome 12 had the most similarity with haplotype of reference cultivar Mehr. This allele combination can be informative markers for improvement of iron content in rice grains through marker-assisted selection programs. Furthermore, the presence of allele combinations, different from reference haplotype in Dadras and Farideh cultivars (with high iron contents) indicated the presence of novel source of QTLs controlling grain iron content in Iranian rice cultivars.

Anandan A, Rajiv G, Eswaran R, Prakash M. 2011. Genotypic variation and relationships between quality traits and trace elements in traditional and improved rice (Oryza sativa L.) genotypes. Journal of Food Science 76, 122-130.

Anuradha K, Agarwal S, Rao YV, Rao KV, Viraktamath BC, Sarla N. 2012. Mapping QTLs and candidate genes for iron and zinc concentrations in unpolished rice of Madhukar× Swarna RILs. Gene 508, 233-240.

Balint AF, Kovacs G, Erdei L, Sutka J. 2001. Comparison of the Cu, Zn, Fe, Ca and Mg contents of the grains of wild, ancient and cultivated wheat species. Cereal Research Communications 29, 375-382.

Clemens S, Palmgren MG, Krämer U. 2002. A long way ahead: understanding and engineering plant metal accumulation. Trends in Plant Science 7,309-315.

Ensminger AH, Ensminger ME, Konlande JE, Robson JRK. 1995. The concise encyclopedia of foods and nutrition. Boca Raton, FL, USA.

Gregorio GB, Htut T. 2003. Micronutrient-dense rice: developing breeding tools at IRRI. Rice Science: Innovations and Impact for Livelihood. International Rice Research Institute, Philippines 371-378.

Gregorio GB, Senadhira D, Htut T, Graham RD. 2000. Breeding for trace mineral density in rice. Food and Nutrition Bulletin 21, 382-386.

Guerinot ML. 2001. Improving rice yields—ironing out the details. Nature Biotechnology 19, 417-418.

Ishikawa S, Abe T, Kuramata M, Yamaguchi M, Ando T, Yamamoto T. 2009. A major quantitative trait locus for increasing cadmium-specific concentration in rice grain is located on the short arm of chromosome 7. Journal of Experimental Botany 61, 923-934.

Johnson AA, Kyriacou B, Callahan DL, Carruthers L, Stangoulis J, Lombi E, Tester M. 2011. Constitutive overexpression of the OsNAS gene family reveals single-gene strategies for effective iron-and zinc-biofortification of rice endosperm. PLoS One 6, 24476.

Liu K, Muse SV. 2005. PowerMarker: an integrated analysis environment for genetic marker analysis. Bioinformatics 21, 2128-2129.

Lu K, Li L, Zheng X, Zhang Z, Mou T, Hu Z. 2008. Quantitative trait loci controlling Cu, Ca, Zn, Mn, and Fe content in rice grains. Journal of Genetics 87, 305-310.

McCartney CA, Sommers DJ, Fedak G, Cao W. 2004. Haplotype diversity at Fusarium head blight resistance QTLs in wheat. Theoretical and Applied Genetics 109, 261-271.

Mohammadi-Nejad G, Singhb RK, Arzanic A, Rezaiec AM, Sabouri H, Gregoriob GB. 2010. Evaluation of salinity tolerance in rice genotypes. International Journal of Plant Production 4, 199-208.

Munson RD, Nelson WL. 1990. Principles and practices in plant analysis. In: Westerman RL, Ed. Soil testing and plant analysis, Soil Science Society of America, 359-388.

Ogbonnaya FC, Imtiaz M, DePauw RM. 2007. Haplotype diversity of preharvest sprouting QTLs in wheat. Genome 50, 107-118.

Saghai-Maroof MA, Soliman KM, Jorgensen RA, Allard RW. 1984. Ribosomal DNA sepacer-length polymorphism in barley: Mendelian inheritance, chromosomal location, and population dynamics. Proceedings of the National Academy of Sciences 81, 8014-8019.

Stangoulis JC, Huynh BL, Welch RM, Choi EY, Graham RD. 2007. Quantitative trait loci for phytate in rice grain and their relationship with grain micronutrient content. Euphytica 154, 289-294.

Susanto U. 2008. Mapping of quantitative trait loci for high iron and zinc content in polished rice (Oryza Sativa L.) grain and some agronomic traits using simple sequence repeats markers, PhD thesis, Bogor agricultural University, Bogor.

Tiwari VK, Rawat N, Chhuneja P, Neelam K, Aggarwal R, Randhawa GS, Singh K. 2009. Mapping of quantitative trait loci for grain iron and zinc concentration in diploid A genome wheat. Journal of Heredity 100, 771-776.

Welch RM, Graham RD. 2004. Breeding for micronutrients in staple food crops from a human nutrition perspective. Journal of Experimental Botany 55, 353-364.

Yamamoto T, Yonemaru J, Yano M. 2009. Towards the understanding of complex traits in rice: Substantially or superficially? DNA research 16, 141-154.

Yano M, Sasaki T. 1997. Genetic and molecular dissection of quantitative traits in rice. Plant Molecular Biology 35, 145-153.

Related Articles

Antioxidant and anti-inflammatory activity of Pleurotus citrinopileatus Singer and Pleurotus sajor-caju (Fr.) Singer

P. Maheswari, P. Madhanraj, V. Ambikapathy, P. Prakash, A. Panneerselvam, J. Biodiv. & Environ. Sci. 27(2), 90-96, August 2025.

Mangrove abundance, diversity, and productivity in effluent-rich estuarine portion of Butuanon River, Mandaue City, Cebu

John Michael B. Genterolizo, Miguelito A. Ruelan, Laarlyn N. Abalos, Kathleen Kay M. Buendia, J. Biodiv. & Environ. Sci. 27(2), 77-89, August 2025.

Cytogenetic and pathological investigations in maize × teosinte hybrids: Chromosome behaviour, spore identification, and inheritance of maydis leaf blight resistance

Krishan Pal, Ravi Kishan Soni, Devraj, Rohit Kumar Tiwari, Ram Avtar, J. Biodiv. & Environ. Sci. 27(2), 70-76, August 2025.

Conservation and trade dynamics of non-timber forest products in local markets in south western Cameroon

Kato Samuel Namuene, Mojoko Fiona Mbella, Godswill Ntsomboh-Ntsefong, Eunice Waki, Hudjicarel Kiekeh, J. Biodiv. & Environ. Sci. 27(2), 58-69, August 2025.

Overemphasis on blue carbon leads to biodiversity loss: A case study on subsidence coastal wetlands in southwest Taiwan

Yih-Tsong Ueng, Feng-Jiau Lin, Ya-Wen Hsiao, Perng-Sheng Chen, Hsiao-Yun Chang, J. Biodiv. & Environ. Sci. 27(2), 46-57, August 2025.

An assessment of the current scenario of biodiversity in Ghana in the context of climate change

Patrick Aaniamenga Bowan, Francis Tuuli Gamuo Junior, J. Biodiv. & Environ. Sci. 27(2), 35-45, August 2025.

Entomofaunal diversity in cowpea [Vigna unguiculata (L.) Walp.] cultivation systems within the cotton-growing zone of central Benin

Lionel Zadji, Roland Bocco, Mohamed Yaya, Abdou-Abou-Bakari Lassissi, Raphael Okounou Toko, J. Biodiv. & Environ. Sci. 27(2), 21-34, August 2025.

Biogenic fabrication of biochar-functionalized iron oxide nanoparticles using Miscanthus sinensis for oxytetracycline removal and toxicological assessment

Meenakshi Sundaram Sharmila, Gurusamy, Annadurai, J. Biodiv. & Environ. Sci. 27(2), 10-20, August 2025.