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Whole genome transcriptome profiling of Pusa 1266 and Pusa Basmati 1 in panicle primordia stage

ABSTRACT: The aim of this study was to identify candidate genes responsible for grain number per panicle between a pair of rice varieties (Pusa 1266 and Pusa Basmati 1) by combining QTL analysis with expression analysis. Microarray analysis of RNA extracted from the panicle primordia showed 2741 differentially expressed genes. The differentially expressed genes were shortened to 18 on the basis of their occurance in the QTL region (responsible for grain number regulation) detected in RIL population derived from Pusa 1266 and Pusa Basmati 1. RNA from the stage '0' panicle primordia of Pusa 1266 and Pusa Basmati 1 were analysed in two different biological replications (A and B) making total four samples

ORGANISM(S): Oryza sativa

SUBMITTER: Rupesh Deshmukh

PROVIDER: E-GEOD-15912 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Identification of candidate genes for grain number in rice (Oryza sativa L.).

Deshmukh Rupesh R Singh Abhinay A Jain Neha N Anand Shweta S Gacche Raju R Singh Ashok A Gaikwad Kishor K Sharma Tilak T Mohapatra Trilochan T Singh Nagendra N

Functional & integrative genomics 20100408 3

Large number of well-filled grains per panicle is an important yield component trait in rice. A combination of QTL mapping and transcriptome profiling was used to identify candidate genes for grain number. A framework linkage map was constructed using 166 SSR markers evenly distributed over the 12 rice chromosomes. QTL mapping using 3 years phenotyping data on a set of recombinant inbred lines derived from a cross between Pusa 1266 (high grain number) and Pusa Basmati 1 (low grain number) identi ...[more]

PMID: 20376514

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Whole genome transcriptome profiling of Pusa 1266 and Pusa Basmati 1 in panicle primordia stage

Project description:The aim of this study was to identify candidate genes responsible for grain number per panicle between a pair of rice varieties (Pusa 1266 and Pusa Basmati 1) by combining QTL analysis with expression analysis. Microarray analysis of RNA extracted from the panicle primordia showed 2741 differentially expressed genes. The differentially expressed genes were shortened to 18 on the basis of their occurance in the QTL region (responsible for grain number regulation) detected in RIL population derived from Pusa 1266 and Pusa Basmati 1.

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