Identification of fragrance gene in some elite advance lines of rice cultivated in foothills of the Himalayas

Paper Details

Research Paper 01/01/2016
Views (327) Download (6)

Identification of fragrance gene in some elite advance lines of rice cultivated in foothills of the Himalayas

Hamid Ali, Fida Muhammad Abbasi, Habib Ahmad, Aziz-Ud-Din, Abzar, Abdullah Khan, Muhammad Abid Khan, Irfan Ullah, Aqib Zeb, Adnan Sarwar
Int. J. Biosci.8( 1), 47-54, January 2016.
Certificate: IJB 2016 [Generate Certificate]


A molecular survey was conducted for the screening of fragrance (fgr) gene in some elite advance lines of rice developed by Dr. Fida Muhammad Abbasi, Professor at Department of Genetics Hazara University Mansehra. Sequence Tag Site (STS) marker RG 28L was used in this study that amplified 140 and 120 bp fragment in fragrant and non-fragrant genotypes, respectively. Among the cultivated varieties Basmati-385 and Swat-1 showed the presence of fgr gene (140 bp amplicon) while IRBB59, JP-5, Fakhre Malakand, and IR24 were lacking this gene. Among the advance lines 12 genotypes showed the presence of fgr gene (140), two genotypes (NPT-86 and Line 36) were segregating while the remaining 16 genotypes were lacking this gene. Grain length of genotypes was also measured that ranges from 4.67 t0 8.10 mm. On the basis of grain length the genotypes were categorized into short, medium, long and extra-long. In this study 4 genotypes possessed extra-long, 17 long, 13 medium and only 2 have short grains.


Ahn SN, Bollich CN, Tanksley SD. 1992. RFLP tagging of a gene for aroma in rice. Theoretical and Applied Genetics 84(7-8), 27-32.

Bradbury LM, Henry RJ, Jin Q, Reinke RF, Waters DL. 2005. A perfect marker for fragrance genotyping in rice. Molecular Breeding 16(4), 279-283.

Cordeiro   GM,   Christopher   MJ,   Henry   RJ, Reinke RF. 2002.  Identification  of  microsatellite markers for fragrance in rice by analysis of the rice genome sequence. Molecular Breeding 9(4), 245-250.

Dellaporta SL, Wood J, Hicks JB. 1983. A plant DNA minipreparation: version II. Plant molecular biology reporter 1(4), 19-21.

Dong Y, Tsuzuki E, Terao H. 2001.  Trisomic genetic analysis of aroma in three Japanese native rice varieties (Oryza sativa L.). Euphytica 117(3), 191-196.

Fan C, Yu S, Wang C, Xing Y. 2009. A causal C–A mutation in the second exon of GS3 highly associated with rice grain length and validated as a functional marker. Theoretical and applied genetics 118(3), 465-472.

Juliano BO, Duff B. 1991. Rice grain quality as an emerging priority in National rice breeding programs. Rice grain marketing and quality issues. Los Banos, Laguna, IRRI, 55-64.

Khush GS, Paule CM, De la Cruz NM. 1978. Rice grain quality evaluation and improvement at IRRI. In Proceedings of the workshop on chemical aspects of rice grain quality.

Marathi B, Guleria S, Mohapatra T, Parsad R, Mariappan N, Kurungara VK, Singh AK. 2012. QTL analysis of novel genomic regions associated with yield and yield related traits in new plant type based recombinant inbred lines of rice (Oryza sativa L.). BMC plant biology 12(1), 137.

McKenzie KS, Rutger JN. 1983. Genetic analysis of amylose content, alkali spreading score, and grain dimensions in rice. Crop Science 23(2), 306-313.×002 300020031x

Shomura A, Izawa T, Ebana K, Ebitani T, Kanegae H, Konishi S, Yano M. 2008. Deletion in a gene associated with grain size increased yields during rice domestication. Nature genetics 40(8), 1023-1028.

Singh RK, Singh US, Khush GS, Rohilla R, Singh JP, Singh G, Shekhar KS. 2000. Small and medium grained aromatic rices of India. Aromatic rices. Oxford & IBH, New Delhi, 155-177.

Song XJ, Huang W, Shi M, Zhu MZ, Lin HX. 2007. A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase. Nature genetics 39(5), 623-630.

Tan YF, Li JX, Yu SB, Xing YZ, Xu CG, Zhang Q. 1999. The three important traits for cooking and eating quality of rice grains are controlled by a single locus in an elite rice hybrid, Shanyou 63. Theoretical and Applied Genetics 99(3-4), 642-648.

Tanchotikul U, Hsieh TCY. 1991. An improved method for quantification of 2-acetyl-1-pyrroline a popcorn-like aroma, in aromatic rice by high resolution gas chromatography/ selected ion monitoring. J. Agric. Food Chem. 39, 944-947.

Wang E, Wang J, Zhu X, Hao W, Wang L, Li Q, He Z. 2008. Control of rice grain-filling and yield by a gene with a potential signature of domestication. Nature genetics 40(11), 1370-1374.

Weng J, Gu S, Wan X, Gao H, Guo T, Su N, Wan J. 2008. Isolation and initial characterization of GW5, a major QTL associated with rice grain width and weight. Cell research 18(12), 1199-1209.