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International Journal of Agriculture, Environment & Biotechnology

Citation: IJAEB: 7 Special Issue : 427-438 July 2014

Molecular Biology

Molecular characterization of bacterial leaf blight resistant

near isogenic lines of rice ( Oryza sativa L. )

using RAPD and SSR markers

Ankita A. Patel 1* , G.C. Jadeja 1 , N. Subhash 2 and Y. M. Shukla 3

1 Department of Genetics and Plant breeding, Anand Agricultural University, Anand-388110, Gujarat, India

2 Department of Plant Tissue Culture, Anand Agricultural University, Anand-388110, Gujarat, India

3 Department of Biochemistry, Anand Agricultural University, Anand-388110, Gujarat, India

Corresponding author: Ankita A. Patel; anki.4404@gmail.com

Abstract

Rice ( Oryza sativa L.) is nutritionally, one of the most important cereal crops. Rice production is mostly reduced due to different biotic

stresses. Bacterial leaf blight, caused by Xanthomonas oryzae pv. oryzae bacteria, is one of the major biotic destructive diseases throughout

the world. This disease affects the rice production because it reduces the photosynthesis by causing leaf wilting. The preferred strategy for

disease management is through varietal resistance because it is not fully controlled by any chemical treatments. Gene pyramiding is the most

effective strategy; in which, pyramided lines with three to four different bacterial leaf blight resistance genes have been developed in the

genetic background of popular rice cultivars by using marker-assisted selection. The present study was carried out with an aim to study the

molecular characterization of 30 rice genotypes for BLB resistance using RAPD and SSR markers. Overall results on the basis of clustering

pattern of SSR and RAPD pooled data analysis revealed genetic similarity between some of the pyramided lines with their respective

recurrent parent. Some of the SSR markers are very informative and can be useful for marker-assisted selection.

Highlights

DNA extraction was done using modified CTAB method from 30 different rice samples

Study themolecular characterization of 30 rice genotypes for BLB resistance using RAPD and SSR markers

Overall results on the basis of clusteringpattern of SSR and RAPD pooled data analysis revealed genetic similarity between some

of the pyramided lines with their respective recurrent parent

Some of the SSR markers are very informative and can be useful for marker-assisted selection

Keywords: Rice, Bacterial Leaf Blight (BLB), Near Isogenic Lines (NILs), Disease resistance genes, Molecular markers, RAPD (Randomly

Amplified Polymorphic DNA), SSR (Simple Sequence Repeat) Marker assisted selection.

Rice ( Oryza sativa L.) is the staple food for nearly 50

in 2010–11, 103.4 million tonnes in 2011–12 and 100

percent of the world population and serves as a major

million tonnes in 2012-13 (FAO, Agricultural Outlook

carbohydrate source. After China, India is the second

and Situation Analysis Reports, United Nations, 2012-

largest rice producing country in the world. In India,

13). Rice is a self-pollinated crop with a monocot seed.

mostly rice growing states include: West Bengal,

The basic chromosome number of the genus is n=12. The

Andhra Pradesh, Uttar Pradesh, Punjab, Orissa, Tamil

Oryza species are either diploid (2n=24) or tetraploids

Nadu, Chhattisgarh, Bihar, Karnataka and Haryana. In

(2n=48). It is an ideal model plant for the study of grass

India, rice production was recorded 96 million tonnes

genetics and genome organization due to its diploid