数字农科院2.0

Transcriptome analysis of grain-filling caryopses reveals involvement of multiple regulatory pathways in chalky grain formation in rice

文献类型： 外文期刊

作者： Liu, Xiaolu;Wan, Xiangyuan;Wang, Haiyang;Zhu, Mingzhu;Li, Aili;Su, Ning;Mao, Bigang;Mao, Long;Wan, Jianmin;Guo, Tao;Shen, Yingyue;Wan, Jianmin

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期刊名称： BMC GENOMICS

ISSN： 1471-2164

年卷期： 2010 年 11 卷

页码：

收录情况： SCI

摘要： Background: Grain endosperm chalkiness of rice is a varietal characteristic that negatively affects not only the appearance and milling properties but also the cooking texture and palatability of cooked rice. However, grain chalkiness is a complex quantitative genetic trait and the molecular mechanisms underlying its formation are poorly understood. Results: A near-isogenic line CSSL50-1 with high chalkiness was compared with its normal parental line Asominori for grain endosperm chalkiness. Physico-biochemical analyses of ripened grains showed that, compared with Asominori, CSSL50-1 contains higher levels of amylose and 8 DP (degree of polymerization) short-chain amylopectin, but lower medium length 12 DP amylopectin. Transcriptome analysis of 15 DAF (day after flowering) caryopses of the isogenic lines identified 623 differential expressed genes (P < 0.01), among which 324 genes are up-regulated and 299 down-regulated. These genes were classified into 18 major categories, with 65.3% of them belong to six major functional groups: signal transduction, cell rescue/defense, transcription, protein degradation, carbohydrate metabolism and redox homeostasis. Detailed pathway dissection demonstrated that genes involved in sucrose and starch synthesis are up-regulated, whereas those involved in non-starch polysaccharides are down regulated. Several genes involved in oxidoreductive homeostasis were found to have higher expression levels in CSSL50-1 as well, suggesting potential roles of ROS in grain chalkiness formation. Conclusion: Extensive gene expression changes were detected during rice grain chalkiness formation. Over half of these differentially expressed genes are implicated in several important categories of genes, including signal transduction, transcription, carbohydrate metabolism and redox homeostasis, suggesting that chalkiness formation involves multiple metabolic and regulatory pathways.

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[1]Additional file 6 of Transcriptome analysis of grain-filling caryopses reveals involvement of multiple regulatory pathways in chalky grain formation in rice. Su, Ning,Xiaolu Liu,Li, Aili,Haiyang Wang,Huqu Zhai,Xiangyuan Wan,Mingzhu Zhu,Mao, Long,Jianmin Wan,Guo, Tao,Bigang Mao,Yingyue Shen

[2]Additional file 9 of Transcriptome analysis of grain-filling caryopses reveals involvement of multiple regulatory pathways in chalky grain formation in rice. Bigang Mao,Li, Aili,Jianmin Wan,Mao, Long,Xiaolu Liu,Yingyue Shen,Haiyang Wang,Su, Ning,Huqu Zhai,Xiangyuan Wan,Guo, Tao,Mingzhu Zhu

[3]Additional file 3 of Transcriptome analysis of grain-filling caryopses reveals involvement of multiple regulatory pathways in chalky grain formation in rice. Li, Aili,Guo, Tao,Mingzhu Zhu,Mao, Long,Haiyang Wang,Xiangyuan Wan,Su, Ning,Huqu Zhai,Xiaolu Liu,Yingyue Shen,Jianmin Wan,Bigang Mao

[4]Additional file 8 of Transcriptome analysis of grain-filling caryopses reveals involvement of multiple regulatory pathways in chalky grain formation in rice. Mao, Long,Su, Ning,Jianmin Wan,Guo, Tao,Haiyang Wang,Mingzhu Zhu,Xiangyuan Wan,Huqu Zhai,Bigang Mao,Li, Aili,Xiaolu Liu,Yingyue Shen

[5]Transcriptome analysis of grain-filling caryopses reveals involvement of multiple regulatory pathways in chalky grain formation in rice. Guo, Tao,Jianmin Wan,Xiangyuan Wan,Bigang Mao,Yingyue Shen,Haiyang Wang,Mingzhu Zhu,Li, Aili,Huqu Zhai,Xiaolu Liu,Su, Ning,Mao, Long

[6]Additional file 12 of Transcriptome analysis of grain-filling caryopses reveals involvement of multiple regulatory pathways in chalky grain formation in rice. Bigang Mao,Xiaolu Liu,Yingyue Shen,Jianmin Wan,Li, Aili,Huqu Zhai,Xiangyuan Wan,Mingzhu Zhu,Mao, Long,Guo, Tao,Su, Ning,Haiyang Wang

[7]Additional file 7 of Transcriptome analysis of grain-filling caryopses reveals involvement of multiple regulatory pathways in chalky grain formation in rice. Mao, Long,Mingzhu Zhu,Huqu Zhai,Jianmin Wan,Li, Aili,Xiaolu Liu,Guo, Tao,Su, Ning,Bigang Mao,Xiangyuan Wan,Yingyue Shen,Haiyang Wang

[8]Additional file 4 of Transcriptome analysis of grain-filling caryopses reveals involvement of multiple regulatory pathways in chalky grain formation in rice. Mingzhu Zhu,Haiyang Wang,Jianmin Wan,Bigang Mao,Li, Aili,Xiangyuan Wan,Mao, Long,Guo, Tao,Huqu Zhai,Yingyue Shen,Su, Ning,Xiaolu Liu

[9]Additional file of Transcriptome analysis of grain-filling caryopses reveals involvement of multiple regulatory pathways in chalky grain formation in rice. Bigang Mao,Xiaolu Liu,Xiangyuan Wan,Jianmin Wan,Haiyang Wang,Mao, Long,Guo, Tao,Li, Aili,Mingzhu Zhu,Yingyue Shen,Huqu Zhai,Su, Ning

[10]Additional file 10 of Transcriptome analysis of grain-filling caryopses reveals involvement of multiple regulatory pathways in chalky grain formation in rice. Xiangyuan Wan,Jianmin Wan,Mingzhu Zhu,Haiyang Wang,Su, Ning,Bigang Mao,Huqu Zhai,Guo, Tao,Li, Aili,Xiaolu Liu,Yingyue Shen,Mao, Long

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