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Profiling the differentially expressed genes in two rice varieties during rapid grain-filling stages

Grain filling is an important agronomic trait, which directly affects the final yield of rice. Partially filled and empty rice grains are among the factors that limit the yield of MR219, one of the highest yielding rice varieties in Malaysia. In this study, the NSF 20 K rice oligonucleotide array, w...

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Main Authors: Teo, Chin Jit, Thuc, Le Vinh, Yeoh, Keat Ai, Chan, Wai Sun, Chivukula, Sudha V., Namasivayam, Parameswari, Ho, Chai Ling
Format: Article
Language:English
Published: Springer-Verlag 2011
Online Access:http://psasir.upm.edu.my/id/eprint/22348/1/Profiling%20the%20differentially%20expressed%20genes%20in%20two%20rice%20varieties%20during%20rapid%20grain.pdf
http://psasir.upm.edu.my/id/eprint/22348/
http://link.springer.com/article/10.1007%2Fs11738-011-0765-1
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spelling my.upm.eprints.223482016-01-12T04:44:20Z http://psasir.upm.edu.my/id/eprint/22348/ Profiling the differentially expressed genes in two rice varieties during rapid grain-filling stages Teo, Chin Jit Thuc, Le Vinh Yeoh, Keat Ai Chan, Wai Sun Chivukula, Sudha V. Namasivayam, Parameswari Ho, Chai Ling Grain filling is an important agronomic trait, which directly affects the final yield of rice. Partially filled and empty rice grains are among the factors that limit the yield of MR219, one of the highest yielding rice varieties in Malaysia. In this study, the NSF 20 K rice oligonucleotide array, which contains 20,000 70-mer oligonucleotide probes, was used for direct comparison of the transcriptomes of MR219 and MR84 (a rice variety that has higher percentage of filled grains compared to MR219), during rapid grain-filling period at 5 and 10 days after fertilization (DAF). A total of 155 and 233 genes were differentially expressed in MR219 compared to MR84 at 5 and 10 DAF, respectively; and 9 of these expression ratios were tested using quantitative real-time RT PCR. Among the differentially expressed genes identified were those encoding hexokinase, various sugar transporters, GSDL-like lipase/acylhydrolase, brassinosteroid-insensitive 1-associated receptor kinase 1 precursor and homeobox protein GLABRA2, which were analyzed by real-time RT PCR in this study. The differences demonstrated by these genes in their transcript levels and profiles, between the two rice varieties understudied at different stages of grain filling may contribute to the formulation of hypotheses toward the understanding of poor percentage of filled grains in MR219. Springer-Verlag 2011 Article PeerReviewed application/pdf en http://psasir.upm.edu.my/id/eprint/22348/1/Profiling%20the%20differentially%20expressed%20genes%20in%20two%20rice%20varieties%20during%20rapid%20grain.pdf Teo, Chin Jit and Thuc, Le Vinh and Yeoh, Keat Ai and Chan, Wai Sun and Chivukula, Sudha V. and Namasivayam, Parameswari and Ho, Chai Ling (2011) Profiling the differentially expressed genes in two rice varieties during rapid grain-filling stages. Acta Physiologiae Plantarum, 33 (6). pp. 2259-2268. ISSN 0137-5881; ESSN: 1861-1664 http://link.springer.com/article/10.1007%2Fs11738-011-0765-1 10.1007/s11738-011-0765-1
institution Universiti Putra Malaysia
building UPM Library
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Putra Malaysia
content_source UPM Institutional Repository
url_provider http://psasir.upm.edu.my/
language English
description Grain filling is an important agronomic trait, which directly affects the final yield of rice. Partially filled and empty rice grains are among the factors that limit the yield of MR219, one of the highest yielding rice varieties in Malaysia. In this study, the NSF 20 K rice oligonucleotide array, which contains 20,000 70-mer oligonucleotide probes, was used for direct comparison of the transcriptomes of MR219 and MR84 (a rice variety that has higher percentage of filled grains compared to MR219), during rapid grain-filling period at 5 and 10 days after fertilization (DAF). A total of 155 and 233 genes were differentially expressed in MR219 compared to MR84 at 5 and 10 DAF, respectively; and 9 of these expression ratios were tested using quantitative real-time RT PCR. Among the differentially expressed genes identified were those encoding hexokinase, various sugar transporters, GSDL-like lipase/acylhydrolase, brassinosteroid-insensitive 1-associated receptor kinase 1 precursor and homeobox protein GLABRA2, which were analyzed by real-time RT PCR in this study. The differences demonstrated by these genes in their transcript levels and profiles, between the two rice varieties understudied at different stages of grain filling may contribute to the formulation of hypotheses toward the understanding of poor percentage of filled grains in MR219.
format Article
author Teo, Chin Jit
Thuc, Le Vinh
Yeoh, Keat Ai
Chan, Wai Sun
Chivukula, Sudha V.
Namasivayam, Parameswari
Ho, Chai Ling
spellingShingle Teo, Chin Jit
Thuc, Le Vinh
Yeoh, Keat Ai
Chan, Wai Sun
Chivukula, Sudha V.
Namasivayam, Parameswari
Ho, Chai Ling
Profiling the differentially expressed genes in two rice varieties during rapid grain-filling stages
author_facet Teo, Chin Jit
Thuc, Le Vinh
Yeoh, Keat Ai
Chan, Wai Sun
Chivukula, Sudha V.
Namasivayam, Parameswari
Ho, Chai Ling
author_sort Teo, Chin Jit
title Profiling the differentially expressed genes in two rice varieties during rapid grain-filling stages
title_short Profiling the differentially expressed genes in two rice varieties during rapid grain-filling stages
title_full Profiling the differentially expressed genes in two rice varieties during rapid grain-filling stages
title_fullStr Profiling the differentially expressed genes in two rice varieties during rapid grain-filling stages
title_full_unstemmed Profiling the differentially expressed genes in two rice varieties during rapid grain-filling stages
title_sort profiling the differentially expressed genes in two rice varieties during rapid grain-filling stages
publisher Springer-Verlag
publishDate 2011
url http://psasir.upm.edu.my/id/eprint/22348/1/Profiling%20the%20differentially%20expressed%20genes%20in%20two%20rice%20varieties%20during%20rapid%20grain.pdf
http://psasir.upm.edu.my/id/eprint/22348/
http://link.springer.com/article/10.1007%2Fs11738-011-0765-1
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score 13.211869

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