Involvement of miR164- and miR167-mediated target gene expressions in responses to water deficit in cassava

Phookaew, P.; Netrphan, S.; Sojikul, Punchapat; Narangajavana, Jarunya

doi:10.1007/s10535-014-0410-0

Cited by 37 publications

(20 citation statements)

References 61 publications

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“…Interestingly, we observed that the transcript level of NAC was positively correlated with the accumulation of miR164 in the root of wheat seedlings upon the Cd stress. This result was in agree with that of Phookaew et al (2014), who found that the expression of miR164 and its target MesNAC was not inversely regulated in the roots of cassava during water deficit. Furthermore, the expression of miR156 and its target SBP in both leaf and root tissues of wheat seedlings in our study also showed positive correlation under Cd stress.…”

Section: Discussionsupporting

confidence: 93%

Characterization of wheat miRNAs and their target genes responsive to cadmium stress

Qiu

Hai

Guo

et al. 2016

Plant Physiology and Biochemistry

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A increasing number of microRNAs have been shown to play important regulatory roles in plant responses to various metal stresses. However, little information about miRNAs especially miRNAs responsive to cadmium (Cd) stress is available in wheat. To investigate the role of miRNAs in responses to Cd stress, wheat seedlings were subjected to 250 μM Cd solution for 6, 12, 24 and 48 h, and analyses of morphological and physiological changes as well as the expression of five miRNAs and their corresponding targets were carried out. Our results demonstrated that miRNAs and their targets were differentially expressed in leaves and roots of wheat seedlings exposed to Cd stress. Furthermore, miR398 may involve in oxidative stress tolerance by regulating its target CSD to participate in Cd stress. Among ten miRNA-target pairs studied, nine pairs showed complex regulation relationship in leaves and roots of wheat seedlings exposed to Cd stress. These findings suggested that miRNAs are involved in the mediation of Cd stress signaling responses in wheat. The characterization of the miRNAs and the associated targets in responses to Cd exposure provides a framework for understanding the molecular mechanism of heavy metal tolerance in plants.

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Section: Discussionsupporting

confidence: 93%

Characterization of wheat miRNAs and their target genes responsive to cadmium stress

Qiu

Hai

Guo

et al. 2016

Plant Physiology and Biochemistry

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“…The function of miRNA-167 was not very clear in plant stress response until it was recently showed that the transgenic tomato plants overexpressing miRNA-167 exhibited reductions in leaf size and internode length as well as shortened petals, stamens, and styles 49 . In another study, the differential expression of the cassava miRNA-167 target genes (MesARF6/8) were observed to be associated with changes in the leaf shape and stomatal closure towards drought stress 50 .…”

Section: Resultsmentioning

confidence: 96%

Machine learning improves our knowledge about miRNA functions towards plant abiotic stresses

Vakilian

2020

Sci Rep

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During the last two decades, human has increased his knowledge about the role of miRNAs and their target genes in plant stress response. Biotic and abiotic stresses result in simultaneous tissue-specific up/down-regulation of several miRNAs. In this study, for the first time, feature selection algorithms have been used to investigate the contribution of individual plant miRnAs in Arabidopsis thaliana response towards different levels of several abiotic stresses including drought, salinity, cold, and heat. Results of information theory-based feature selection revealed that miRNA-169, miRNA-159, miRNA-396, and miRNA-393 had the highest contributions to plant response towards drought, salinity, cold, and heat, respectively. Furthermore, regression models, i.e., decision tree (DT), support vector machines (SVMs), and Naïve Bayes (NB) were used to predict the plant stress by having the plant miRNAs' concentration. SVM with Gaussian kernel was capable of predicting plant stress (R 2 = 0.96) considering miRnA concentrations as input features. findings of this study prove the performance of machine learning as a promising tool to investigate some aspects of miRnAs' contribution to plant stress responses that have been undiscovered until today. microRNAs (miRNAs) are small single-stranded RNAs with low protein-coding potential 1. Although plant miR-NAs target only a small number of mRNAs (<1%) 2 , the role of miRNA-controlled gene regulation in plants cannot be neglected because most of the target mRNAs participate in most plant developmental processes 3,4. Furthermore, there are evidences showing the relationships between plant stress responses and changes in miR-NAs' expression 5,6. miRNAs are known as negative post-transcription regulators since they exert specific binding to their target mRNAs or repressing target mRNA translation 7-9. Among the major plant abiotic stress sources, drought, salinity, cold, heat, ultraviolet irradiation, carbon dioxide, and heavy metal pollution have significant effects on plant morphological, physiological, and biochemical characteristics 10,11. To adapt and survive under stress conditions, plants exert miRNA up/down-regulation which results in gene expression reprogramming to restore cellular homeostasis 12,13. Plant miRNA expression towards stress is generally spatial (plant tissue) and temporal (developmental/growth stage) specific 4,14. With the identification of stress-responsive miRNAs, useful information on their role in improving the stress tolerance mechanism of plants can be obtained. A search in bibliographic resources reveals that hundreds of research studies have been dedicated to the changes in plant miRNA expression in response to biotic and abiotic stresses. A large part of these studies has focused on Arabidopsis thaliana, Brachypodium distachyon, Glycine max, Hordeum vulgare, Medicago truncatula, Manihot esculenta, Phaseolus vulgaris, Populus euphratica, Populus trichocarpa, Populus tremula, Triticum turgidum, Oryza sativa, Vigna unguiculate, and Zea mays 15. Studies ...

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“…Several of the conserved miRNAs expressed only in shoot in response to salt, like miR172a and miR393a, targeting genes encoding proteins like AP2/EREBP and auxin receptor in SCF-E3 ligase indicating the involvement of ethylene and auxin in salt tolerance, and more importantly the modulation of hormonal action and signaling in the salt tolerance process. The fact that salt tolerance in plants could be auxin mediated also stems from 1) upregulation of miR171b (S2 File, S3 File), which targets the gene scarecrow-like proteins that negatively regulates GA/auxin action, 2) downregulation of miR167f in shoot in Pokkali (Fig 1) and sma-miR7 in the halophyte S. maritima [21], both targeting ARF, and 3) the reports of accumulation ARF and IAA-Ala under abiotic stress [53,54]. The second line of miRNA mediated salt tolerance in plants could be through influence on transcription factors regulating expression of genes encoding proteins involved in a wide range of biochemical and physiological processes linked to abiotic stress tolerance without the involvement of plant hormones, like NAC, NFYA, TCP, HD-Zip III and Myb, targeted by miR164a/b/f, miR169c, miR319a, miR166 and miR159a, respectively.…”

Section: Discussionmentioning

confidence: 99%

“…In contrast to others, the members of miR167 has been reported to be drought responsive [52], and Kinoshita et al [53] have reported their downregulation under high osmotic stress, in agreement with the present observation in shoot (S2 File) considering the fact that salt application also creates physiological dryness like situation, at least during the initial phase of treatment. Moreover, the targets of mir167, like ARF and IAA-Ala, have also been reported to accumulate under drought or osmotic stress [53,54]. It is well established that ARF class of transcription factors regulates diverse metabolic and developmental process under abiotic stress for the benefit of the plant [39,55], and downregulation of miR167f in response to NaCl application in the root and shoot tissues of Pokkali, but not in Badami (Fig 1), might be enabling Pokkali to tolerate salinity better than Badami.…”

Section: Plos Onementioning

confidence: 99%

Identification and expression analysis of miRNAs and elucidation of their role in salt tolerance in rice varieties susceptible and tolerant to salinity

et al. 2020

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Soil salinization is a serious problem for cultivation of rice, as among cereals rice is the most salt sensitive crop, and more than 40% of the total agricultural land amounting to approximately 80 million ha the world over is salt affected. Salinity affects a plant in a varieties of ways, including ion toxicity, osmotic stress and oxidative damage. Since miRNAs occupy the top place in biochemical events determining a trait, understanding their role in salt tolerance is highly desirable, which may allow introduction of the trait in the rice cultivars of choice through biotechnological interventions. High throughput sequencing of sRNAs in the root and shoot tissues of the seedlings of the control and NaCl treated Pokkali, a salt-tolerant rice variety, identified 75 conserved miRNAs and mapped 200 sRNAs to the rice genome as novel miRNAs. Expression of nine novel miRNAs and two conserved miRNAs were confirmed by Northern blotting. Several of both conserved and novel miRNAs that expressed differentially in root and/or shoot tissues targeted transcription factors like AP2/ EREBP domain protein, ARF, NAC, MYB, NF-YA, HD-Zip III, TCP and SBP reported to be involved in salt tolerance or in abiotic stress tolerance in general. Most of the novel miRNAs expressed in the salt tolerant wild rice Oryza coarctata, suggesting conservation of miRNAs in taxonomically related species. One of the novel miRNAs, osa-miR12477, also targeted Lascorbate oxidase (LAO), indicating build-up of oxidative stress in the plant upon salt treatment, which was confirmed by DAB staining. Thus, salt tolerance might involve miRNAmediated regulation of 1) cellular abundance of the hormone signaling components like EREBP and ARF, 2) synthesis of abiotic stress related transcription factors, and 3) antioxidative component like LAO for mitigation of oxidative damage. The study clearly indicated importance of osa-miR12477 regulated expression of LAO in salt tolerance in the plant.

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Involvement of miR164- and miR167-mediated target gene expressions in responses to water deficit in cassava

Cited by 37 publications

References 61 publications

Characterization of wheat miRNAs and their target genes responsive to cadmium stress

Characterization of wheat miRNAs and their target genes responsive to cadmium stress

Machine learning improves our knowledge about miRNA functions towards plant abiotic stresses

Identification and expression analysis of miRNAs and elucidation of their role in salt tolerance in rice varieties susceptible and tolerant to salinity

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