Role of chromosomes 1 and 6 in the genetic control of agronomical traits in rice

Subject Areas : Agroecology Journal

Hossein Sabouri ¹ , Mahnaz Katouzi ² , Rasool Khatami Nejad ³

1 - Assist. Prof. in Biometrical Genetic, Department of Plant Production, College of Agriculture Science and Natural Resource, Gonbad Kavous University, Iran.
2 - M.Sc. in Agronomy, College of Agricultural Science, Tabriz Branch, Islamic Azad University, Tabriz, Iran.
3 - M.Sc. in Animal Genetic, College of Agricultural Science and Natural Resources, Gonbad Kavous University, Iran.

Received: 2011-05-10 Accepted : 2011-11-09 Published : 2011-09-23

Keywords: Rice, QTL mapping, linkage map,

Abstract :

In order to mapping of QTLs related to agronomical traits, an F2:3 population derived from the cross between Shahpasand (indica) and IR28 (indica) was used to mapping agronomic traits in rice. The linkage map constructed by 33 simple sequence repeat (SSR) molecular markers covered a total of about 336 cM rice chromosomes 1 and 6. Mapping population was grown in Gonbad Kavous University. Five QTLs, for biomass (Two QTLs) and harvest index (Three QTLs) were identified. The allele from IR28 parent increased biomass production. The additive effects of all alleles, except the alleles of qHI-1a increased measured traits in the plant. The QTLs related to harvest index were located on chromosomes 1 and 6 where the allele from IR28 at qHI-1b and qHI-6 increased harvest index. Number of filled grains, plant height, and panicle length, number of panicle, grain weight, and panicle weight were mapped. Three QTLs for number of filled grain were detected on chromosome 1(two QTLs) and choromosome 6 (1 QTL). Indeed, three QTLs on chromosomes 1 and 6 for the number of panicles, one QTL for the plant height (chromosome 6), one QTL for the panicle length and grain weight (chromosome 1) were identified. IR28 alleles in qFG-1a, qFG-1b and qFG-6 increased number of filled grains. Among these QTLs, the three major QTLs with very large effects, i.e. qFG-1a for number of filled grain, qLP-6 for panicle length and qWG-1  for grain weight explained 14.33, 12.45 and 11.99% of the total phenotypic variances, respectively. The results reinforced the idea that, new QTLs of this study could play an important role in the developing of rice populations.

References:

Brondani, C, Rangel, PHN, Brondani, RPV, Ferreira, ME (2002) QTL mapping and introgression of yield–related traits from Oryza glumaepatula to cultivated rice (Oryza sativa L.) using microsatellite markers. Theoretical and Applied Genetics, 104: 1192-1203.

Chen X, Temnykh S, Xu Y, Cho YG, McCouch SR (1997) Development  of a microsatellite framework map providing genome–wide  coverage in rice (Oryza  sativa L.). Theoretical and Applied Genetics 95: 553-567. 

Hittalmani S, Shashidhar HE, Bagali PG, Huang N, Sidhu JS, Singh VP, Khush GS (2002) Molecular mapping of quantitative trait loci for plant growth, yield and yield related traits across three diverse locations in a doubled haploid rice population. Euphytica 125: 207-214.

Kazemi H (2006) Morphology and anatomy of cereal crops. Tabriz University Press, 588 pp. [In Persian with English Abstract].

Kosambi  DD (1944) The estimation of map distances from recombination values. Annual Eugen, 12: 172-175.

 Lin HX, Zhu MZ, Yano M, Gao JP, Liang ZW, Su WA, Hu XH, Ren ZH, Chao DY (2004) QTLs for Na and K uptake of the shoots and roots controlling rice salt tolerance. Theoretical and Applied. Genetics 108: 253-260.

Manly KF, Olson JM (1999) Overview of QTL mapping software and  introduction to Map Manager QTX. Mammalian Genome 10: 327–334.

McCouch SR, Teytelman L, Xu Y, Lobos K, Clare K, Walton M (2002)  Development of 2243 new SSR markers for rice by the international rice microsatellite initiative. Proceeding of the First International Rice Congress. Shanghai. China. pp.150-152. 

McCouch SR, Tanksley SD (1994) Saturated molecular map of the rice genome based on an interspecific backcross population. Genetics 138: 1251-1274

Nelson  JC (1997) QGENE: software for marker-based genomic analysis and breeding. Molecular Breeding. 3: 239-245.

Paterson AH (1996) Making genetic maps. pp. 23–39. In: Paterson AH (Ed.), Genome mapping in plants. Academic Press, Austin, Texas.

Rabiei B, Valizadeh M, Ghareyazie B, Moghaddam M, Ali J (2004) Identification of QTLs for rice grain size and shape of iranian cultivars using SSR markers. Euphytica 137: 322-325.

Sabouri H, Sabouri A, Dadras AR (2009) Genetic dissection of biomass production and partitioning with grain yield and yield traits in indica-indica crosses of rice (Oryza sativa L.) cultivars. Australian Journal of Crop Science 3: 155-166.

Sabouri A (2010) Mapping QTLs related to grain quality traits in rice. Ph.D. Thesis. Tabriz University. 123 pp. [In Persian with English Abstract].

Saghi Maroof MA, Biyashev RM, Yang GP, Zhang Q, Allard RW (1994) Extraordinarily polymorphic microsatellites DNA in barely species diversity, choromosomal location, and population dynamics. Proceeding of the Academy of Sciences, USA. 91: 5466-5570.

Temnykh S, Park WD, Ayres N, Cartinhour S, Hauck N, Lipovich L, Cho YG, Ishii T, McCouch SR (2000) Mapping and genome organization of microsatellite sequences in rice (Oryza sativa L.). Theoretical and Applied Genetics 100: 697-712.

Thomson MJ, Tai TH, McClung AM, Lai XH, Hinga ME, Lobo KB, Xu Y, Martínez R, McCouch SR (2003) Mapping quantitative trait loci for yield, yield components and morphological traits in an advanced backcross population between Oryza rufipogon and the Oryza sativa cultivar Jefferson. Theoretical and Applied Genetics 107: 479-493.

Rabiei B, Valizadeh M, Ghareyazie B, Moghaddam M, Ali J (2004) Identification of QTLs for rice grain                                                                                                    size and shape of Iranian cultivars  using SSR markers. Euphytica  137: 325-332.

Yoon DB, Kang KH, Kim HJ, Ju HG, Kwon SJ, Suh JP, Jeong OY, Ahn SN (2006) Mapping quantitative trait loci for yield components and morphological traits in an advanced backcross population between Oryza grandiglumis and O. sativa Japonica cultivar Hwaseongbyeo. Theoretical and Applied Genetics 112: 1052-1062

Yu SB, Li JX, Xu CG, Tan YF, Li XH, Zhang Q (2002) Identification of quantitative trait loci and epistatic interactions for plant height and heading date in rice. Theoretical and Applied Genetics 104: 619-625.

Zebeau M, Vos P (1993) Selective restirection fragment amplification: a general method for DNA fingerprinting. Word Intellectual property organization Press. Geneva, Suuatzerland.