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Differential expression of seven conserved microRNAs in response to abiotic stress and their regulatory network in Helianthus annuus.

Ebrahimi Khaksefidi R, Mirlohi S, Khalaji F, Fakhari Z, Shiran B, Fallahi H, Rafiei F, Budak H, Ebrahimie E - Front Plant Sci (2015)

Bottom Line: Here, for the first time, seven conserved miRNAs, associated with drought, heat, salt and cadmium stresses were characterized in sunflower.Based on network analysis, we suggest that some of these miRNAs in sunflower such as miR172 and miR403 may play critical roles in epigenetic responses to stress.It seems that depending on the stress type, theses miRNAs target several pathways and cellular processes to help sunflower to cope with drought, heat, salt and cadmium stress conditions in a tissue-associated manner.

View Article: PubMed Central - PubMed

Affiliation: Department of Plant Breeding and Biotechnology, Faculty of Agriculture, Shahrekord University Shahrekord, Iran.

ABSTRACT
Biotic and abiotic stresses affect plant development and production through alternation of the gene expression pattern. Gene expression itself is under the control of different regulators such as miRNAs and transcription factors (TFs). MiRNAs are known to play important roles in regulation of stress responses via interacting with their target mRNAs. Here, for the first time, seven conserved miRNAs, associated with drought, heat, salt and cadmium stresses were characterized in sunflower. The expression profiles of miRNAs and their targets were comparatively analyzed between leaves and roots of plants grown under the mentioned stress conditions. Gene ontology analysis of target genes revealed that they are involved in several important pathways such as auxin and ethylene signaling, RNA mediated silencing and DNA methylation processes. Gene regulatory network highlighted the existence of cross-talks between these stress-responsive miRNAs and the other stress responsive genes in sunflower. Based on network analysis, we suggest that some of these miRNAs in sunflower such as miR172 and miR403 may play critical roles in epigenetic responses to stress. It seems that depending on the stress type, theses miRNAs target several pathways and cellular processes to help sunflower to cope with drought, heat, salt and cadmium stress conditions in a tissue-associated manner.

No MeSH data available.


Related in: MedlinePlus

Clustering of miRNAs expression profiles. Heat map diagram of miRNA expression prepared with two-way unsupervised hierarchical clustering of miRNAs expression under different abiotic stress. miRNAs are given in the rows and each columns represent a sample. The miRNA clustering tree is shown on the left (cluster I, II and III). Abbreviations: L, Leaf; R, Root; h, Hour; D, Drought stress; S, Salt Stress; Cd, Cadmium stress.
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Figure 5: Clustering of miRNAs expression profiles. Heat map diagram of miRNA expression prepared with two-way unsupervised hierarchical clustering of miRNAs expression under different abiotic stress. miRNAs are given in the rows and each columns represent a sample. The miRNA clustering tree is shown on the left (cluster I, II and III). Abbreviations: L, Leaf; R, Root; h, Hour; D, Drought stress; S, Salt Stress; Cd, Cadmium stress.

Mentions: Cluster analysis was performed to further analyze the pattern of expression of these miRNAs under different stress conditions. A comparison of expression profiles of these seven miRNAs in both tissues was conducted to find their tissue-specific expression patterns, regardless of their response to different stress conditions. Three clusters were formed, when the expression pattern of the seven miRNAs were analyzed in response to stress (Figure 5). Cluster I included miR167 and miR398. The expression pattern of leaf and root was opposite, but their trend was similar in each tissue over time and stress. In root tissue, these miRNAs revealed slight alteration in three treatments; the highest peak was in 5 mg/L cadmium stress. Cluster II contained miR172 and miR403 families and showed a fluctuated pattern in leaves and roots in all of stress conditions. Median value of expression of these miRNAs exhibited increasing pattern in four stresses. Due to similarity in expression patterns of miR160, miR426 and miR842, they grouped in the cluster III. They displayed similar trend in each tissue during stress. The lowest peak of miR842 was in severe stress through drought and salt condition in the leaf tissue, while it was at 3 h after heat treatment in the root tissue.


Differential expression of seven conserved microRNAs in response to abiotic stress and their regulatory network in Helianthus annuus.

Ebrahimi Khaksefidi R, Mirlohi S, Khalaji F, Fakhari Z, Shiran B, Fallahi H, Rafiei F, Budak H, Ebrahimie E - Front Plant Sci (2015)

Clustering of miRNAs expression profiles. Heat map diagram of miRNA expression prepared with two-way unsupervised hierarchical clustering of miRNAs expression under different abiotic stress. miRNAs are given in the rows and each columns represent a sample. The miRNA clustering tree is shown on the left (cluster I, II and III). Abbreviations: L, Leaf; R, Root; h, Hour; D, Drought stress; S, Salt Stress; Cd, Cadmium stress.
© Copyright Policy
Related In: Results  -  Collection

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Show All Figures
getmorefigures.php?uid=PMC4585256&req=5

Figure 5: Clustering of miRNAs expression profiles. Heat map diagram of miRNA expression prepared with two-way unsupervised hierarchical clustering of miRNAs expression under different abiotic stress. miRNAs are given in the rows and each columns represent a sample. The miRNA clustering tree is shown on the left (cluster I, II and III). Abbreviations: L, Leaf; R, Root; h, Hour; D, Drought stress; S, Salt Stress; Cd, Cadmium stress.
Mentions: Cluster analysis was performed to further analyze the pattern of expression of these miRNAs under different stress conditions. A comparison of expression profiles of these seven miRNAs in both tissues was conducted to find their tissue-specific expression patterns, regardless of their response to different stress conditions. Three clusters were formed, when the expression pattern of the seven miRNAs were analyzed in response to stress (Figure 5). Cluster I included miR167 and miR398. The expression pattern of leaf and root was opposite, but their trend was similar in each tissue over time and stress. In root tissue, these miRNAs revealed slight alteration in three treatments; the highest peak was in 5 mg/L cadmium stress. Cluster II contained miR172 and miR403 families and showed a fluctuated pattern in leaves and roots in all of stress conditions. Median value of expression of these miRNAs exhibited increasing pattern in four stresses. Due to similarity in expression patterns of miR160, miR426 and miR842, they grouped in the cluster III. They displayed similar trend in each tissue during stress. The lowest peak of miR842 was in severe stress through drought and salt condition in the leaf tissue, while it was at 3 h after heat treatment in the root tissue.

Bottom Line: Here, for the first time, seven conserved miRNAs, associated with drought, heat, salt and cadmium stresses were characterized in sunflower.Based on network analysis, we suggest that some of these miRNAs in sunflower such as miR172 and miR403 may play critical roles in epigenetic responses to stress.It seems that depending on the stress type, theses miRNAs target several pathways and cellular processes to help sunflower to cope with drought, heat, salt and cadmium stress conditions in a tissue-associated manner.

View Article: PubMed Central - PubMed

Affiliation: Department of Plant Breeding and Biotechnology, Faculty of Agriculture, Shahrekord University Shahrekord, Iran.

ABSTRACT
Biotic and abiotic stresses affect plant development and production through alternation of the gene expression pattern. Gene expression itself is under the control of different regulators such as miRNAs and transcription factors (TFs). MiRNAs are known to play important roles in regulation of stress responses via interacting with their target mRNAs. Here, for the first time, seven conserved miRNAs, associated with drought, heat, salt and cadmium stresses were characterized in sunflower. The expression profiles of miRNAs and their targets were comparatively analyzed between leaves and roots of plants grown under the mentioned stress conditions. Gene ontology analysis of target genes revealed that they are involved in several important pathways such as auxin and ethylene signaling, RNA mediated silencing and DNA methylation processes. Gene regulatory network highlighted the existence of cross-talks between these stress-responsive miRNAs and the other stress responsive genes in sunflower. Based on network analysis, we suggest that some of these miRNAs in sunflower such as miR172 and miR403 may play critical roles in epigenetic responses to stress. It seems that depending on the stress type, theses miRNAs target several pathways and cellular processes to help sunflower to cope with drought, heat, salt and cadmium stress conditions in a tissue-associated manner.

No MeSH data available.


Related in: MedlinePlus