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Comprehensive expression analysis of rice Armadillo gene family during abiotic stress and development.

Sharma M, Singh A, Shankar A, Pandey A, Baranwal V, Kapoor S, Tyagi AK, Pandey GK - DNA Res. (2014)

Bottom Line: Previous studies have confirmed that Armadillo proteins constitute a multigene family in Arabidopsis.Phylogenetic study classified them into several arbitrary groups based on a varying number of non-conserved ARM repeats and accessory domain(s) associated with them.The non-synonymous and synonymous substitutions per site ratios (Ka/Ks) of duplicated gene pairs indicate a purifying selection.

View Article: PubMed Central - PubMed

Affiliation: Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, Dhaula Kuan, New Delhi 110021, India.

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Validation of expression profiles for selected OsARM genes in abiotic stress conditions by Q-PCR. Q-PCR and microarray analysis was performed taking two and three biological replicates, respectively. Standard error bars have been shown for data obtained both from microarray and Q-PCR. Y-axis represents raw expression values from microarray and normalized expression value from Q-PCR and X-axis shows different experimental conditions.
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DST056F6: Validation of expression profiles for selected OsARM genes in abiotic stress conditions by Q-PCR. Q-PCR and microarray analysis was performed taking two and three biological replicates, respectively. Standard error bars have been shown for data obtained both from microarray and Q-PCR. Y-axis represents raw expression values from microarray and normalized expression value from Q-PCR and X-axis shows different experimental conditions.

Mentions: Among 36 OsARM genes expressing differentially under abiotic stress conditions, expression pattern of eight significant candidate genes was validated experimentally, employing quantitative real-time RT–PCR. All the eight genes showed anticipated expression pattern in most of the conditions and hence, could be correlated with microarray expression pattern. Similarly, differential expression of five genes under developmental stages was validated by Q-RT–PCR analysis. Statistical analysis also confirmed a positive correlation association between the microarray and real-time analysis (Figs 6 and 7 and Supplementary Table S8). However, the magnitude of expression varied in some samples. This kind of variation in expression by these two techniques, i.e. microarray and real-time PCR, has also been observed previously.33,34 The real-time PCR efficiency was also calculated and was found to be ∼92%, which is in the acceptable range.Figure 6.


Comprehensive expression analysis of rice Armadillo gene family during abiotic stress and development.

Sharma M, Singh A, Shankar A, Pandey A, Baranwal V, Kapoor S, Tyagi AK, Pandey GK - DNA Res. (2014)

Validation of expression profiles for selected OsARM genes in abiotic stress conditions by Q-PCR. Q-PCR and microarray analysis was performed taking two and three biological replicates, respectively. Standard error bars have been shown for data obtained both from microarray and Q-PCR. Y-axis represents raw expression values from microarray and normalized expression value from Q-PCR and X-axis shows different experimental conditions.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4060948&req=5

DST056F6: Validation of expression profiles for selected OsARM genes in abiotic stress conditions by Q-PCR. Q-PCR and microarray analysis was performed taking two and three biological replicates, respectively. Standard error bars have been shown for data obtained both from microarray and Q-PCR. Y-axis represents raw expression values from microarray and normalized expression value from Q-PCR and X-axis shows different experimental conditions.
Mentions: Among 36 OsARM genes expressing differentially under abiotic stress conditions, expression pattern of eight significant candidate genes was validated experimentally, employing quantitative real-time RT–PCR. All the eight genes showed anticipated expression pattern in most of the conditions and hence, could be correlated with microarray expression pattern. Similarly, differential expression of five genes under developmental stages was validated by Q-RT–PCR analysis. Statistical analysis also confirmed a positive correlation association between the microarray and real-time analysis (Figs 6 and 7 and Supplementary Table S8). However, the magnitude of expression varied in some samples. This kind of variation in expression by these two techniques, i.e. microarray and real-time PCR, has also been observed previously.33,34 The real-time PCR efficiency was also calculated and was found to be ∼92%, which is in the acceptable range.Figure 6.

Bottom Line: Previous studies have confirmed that Armadillo proteins constitute a multigene family in Arabidopsis.Phylogenetic study classified them into several arbitrary groups based on a varying number of non-conserved ARM repeats and accessory domain(s) associated with them.The non-synonymous and synonymous substitutions per site ratios (Ka/Ks) of duplicated gene pairs indicate a purifying selection.

View Article: PubMed Central - PubMed

Affiliation: Department of Plant Molecular Biology, University of Delhi South Campus, Benito Juarez Road, Dhaula Kuan, New Delhi 110021, India.

Show MeSH
Related in: MedlinePlus