Int. J. Mol. Sci. 2013, 14(11), 22499-22528; doi:10.3390/ijms141122499
Review

A Review of Microsatellite Markers and Their Applications in Rice Breeding Programs to Improve Blast Disease Resistance

1 Laboratory of Food Crops, Institute of Tropical Agriculture, Universiti Putra Malaysia, 43400 UPM Serdang, Selangor, Malaysia 2 Department of Crop Science, Faculty of Agriculture, Universiti Putra Malaysia, 43400 UPM Serdang, Selangor, Malaysia 3 Agrotechnology and Bioscience Division, Malaysian Nuclear Agency, 43000 Kajang, Selangor, Malaysia 4 Laboratory of Anatomy and Histology, Department of Veterinary Preclinical Sciences, Faculty of Veterinary Medicine, Universiti Putra Malaysia, 43400 UPM Serdang, Selangor, Malaysia 5 Bangladesh Rice Research Institute, Gazipur 1701, Bangladesh
* Author to whom correspondence should be addressed.
Received: 12 August 2013; in revised form: 26 September 2013 / Accepted: 16 October 2013 / Published: 14 November 2013
(This article belongs to the Section Molecular Diagnostics)
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Abstract: Over the last few decades, the use of molecular markers has played an increasing role in rice breeding and genetics. Of the different types of molecular markers, microsatellites have been utilized most extensively, because they can be readily amplified by PCR and the large amount of allelic variation at each locus. Microsatellites are also known as simple sequence repeats (SSR), and they are typically composed of 1–6 nucleotide repeats. These markers are abundant, distributed throughout the genome and are highly polymorphic compared with other genetic markers, as well as being species-specific and co-dominant. For these reasons, they have become increasingly important genetic markers in rice breeding programs. The evolution of new biotypes of pests and diseases as well as the pressures of climate change pose serious challenges to rice breeders, who would like to increase rice production by introducing resistance to multiple biotic and abiotic stresses. Recent advances in rice genomics have now made it possible to identify and map a number of genes through linkage to existing DNA markers. Among the more noteworthy examples of genes that have been tightly linked to molecular markers in rice are those that confer resistance or tolerance to blast. Therefore, in combination with conventional breeding approaches, marker-assisted selection (MAS) can be used to monitor the presence or lack of these genes in breeding populations. For example, marker-assisted backcross breeding has been used to integrate important genes with significant biological effects into a number of commonly grown rice varieties. The use of cost-effective, finely mapped microsatellite markers and MAS strategies should provide opportunities for breeders to develop high-yield, blast resistance rice cultivars. The aim of this review is to summarize the current knowledge concerning the linkage of microsatellite markers to rice blast resistance genes, as well as to explore the use of MAS in rice breeding programs aimed at improving blast resistance in this species. We also discuss the various advantages, disadvantages and uses of microsatellite markers relative to other molecular marker types.
Keywords: simple sequence repeats; marker development and application; blast resistance; marker assisted selection; rice breeding

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MDPI and ACS Style

Miah, G.; Rafii, M.Y.; Ismail, M.R.; Puteh, A.B.; Rahim, H.A.; Islam, K.N.; Latif, M.A. A Review of Microsatellite Markers and Their Applications in Rice Breeding Programs to Improve Blast Disease Resistance. Int. J. Mol. Sci. 2013, 14, 22499-22528.

AMA Style

Miah G, Rafii MY, Ismail MR, Puteh AB, Rahim HA, Islam KN, Latif MA. A Review of Microsatellite Markers and Their Applications in Rice Breeding Programs to Improve Blast Disease Resistance. International Journal of Molecular Sciences. 2013; 14(11):22499-22528.

Chicago/Turabian Style

Miah, Gous; Rafii, Mohd Y.; Ismail, Mohd R.; Puteh, Adam B.; Rahim, Harun A.; Islam, Kh. N.; Latif, Mohammad A. 2013. "A Review of Microsatellite Markers and Their Applications in Rice Breeding Programs to Improve Blast Disease Resistance." Int. J. Mol. Sci. 14, no. 11: 22499-22528.

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