Volume 1 Number 2 (Jul. 2011)
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IJBBB 2011 Vol.1(2): 89-97 ISSN: 2010-3638
DOI: 10.7763/IJBBB.2011.V1.17

Pathway Analysis of the Differentially Expressed Genes in Oryza Sativa Exposed to the Implantation of Low-Energy Nitrogen Ion

Hui-Yuan Ya, Qiu-Fang Chen, Wei-Dong Wang, Guang-Yong Qin, and Zhen Jiao

Abstract—In order to investigate the overall characteristics of the transcript profiles in rice cell underlying the radiation of the ion beam. We used the Agilent Rice Oligo Microarray ( 4×44K ) Genome Array to investigate the differentially expressed genes in rice responding to low-energy ionimplantation. Rice seeds were implanted by the nitrogen ion beam and their vigor index was investigated at ten days after germination. The measuring of the vigor index showed that lower-dose implantation of the nitrogen ion beam (6×1017 N+/cm2) enhanced the vigor index of the rice seedlings and the higher-dose implantation (9×1017 N+/cm2) damaged the rice seedlings because of the weaker vigor index. The analysis of the Genechip Array showed that there were 982 genes expressed differentially (fold change>2 and P value<0.05), including 429 up-regulated genes and 553 down-regulated genes underlying the dose3:6×1017 N+/cm2. 15 out of the 429 up-regulated genes were involved in 22 pathways including carbohydrate metabolism, translation, biosynthesis of secondary metabolites, lipid metabolism, energy metabolism, replication and repair, nucleotide metabolism, signal transduction, folding, sorting and degradation. 30 out of the 553 down-regulated transcripts were involved in 48 pathways. Our analysis revealed that the differentially expressed genes involving important pathways were compatible with the distinct cellular events in response to stress of ion implantation. It supplied the first comprehensive and comparative molecular information for further understanding the mechanism in plant cell exposing to the low-energy ion beam.

Index Terms—Ion beam implantation, Pathway analysis, Rice, Transcriptome.

H-Y.Ya is an associate professor in bioinformatics and genetics and at life science department in Luoyang Normal University, China. (086-379- 65526176,e-mail:yahuiyuan@yahoo.com.cn)
Q-F.Chen, W-D.Wang, G-Y.Qin and Z. Jiao all are at Henan Key Lab of Ion beam Bioengineering Zhengzhou University and are in the genetics, China. (tel:086-371-67763386 and their e-mails are 254820366@qq.com, 253388325@qq.com, qinguangyong@zzu.edu.cn and 150011109@qq.com respectively )

 

Cite: Hui-Yuan Ya, Qiu-Fang Chen, Wei-Dong Wang, Guang-Yong Qin, and Zhen Jiao, "Pathway Analysis of the Differentially Expressed Genes in Oryza Sativa Exposed to the Implantation of Low-Energy Nitrogen Ion," International Journal of Bioscience, Biochemistry and Bioinformatics vol. 1, no. 2, pp. 89-97, 2011.

General Information

ISSN: 2010-3638 (Online)
Abbreviated Title: Int. J. Biosci. Biochem. Bioinform.
Frequency: Quarterly 
DOI: 10.17706/IJBBB
Editor-in-Chief: Prof. Ebtisam Heikal 
Abstracting/ Indexing:  Electronic Journals Library, Chemical Abstracts Services (CAS), Engineering & Technology Digital Library, Google Scholar, and ProQuest.
E-mail: ijbbb@iap.org
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