Identification and profiling of miRNAs during herbivory reveals jasmonate-dependent and -independent patterns of accumulation in Nicotiana attenuata

Bozorov, Tohir A.; Baldwin, Ian Thomas; Kim, Sang-Gyu

doi:10.1186/1471-2229-12-209

Cited by 24 publications

(29 citation statements)

References 65 publications

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“…Consequently, downregulation of MYB3 may lead to upregulation of secondary metabolites such as jasmonic acid (Plett et al 2014). Several studies from dicots, such as tomato and Nicotiana , revealed jasmonic acid-associated differential expression of several miRNAs such as miR319 (Bozorov et al 2012; Zhao et al 2015). The same miRNA was also detected as slightly upregulated in Wang’s study suggesting a jasmonic acid-responsive wheat orthologue (Wang et al 2014).…”

Section: Mirnas Associated With Abiotic Stress Responses In the Tritimentioning

confidence: 99%

Abiotic stress miRNomes in the Triticeae

Alptekin

Langridge

Budak

2016

Funct Integr Genomics

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The continued growth in world population necessitates increases in both the quantity and quality of agricultural production. Triticeae members, particularly wheat and barley, make an important contribution to world food reserves by providing rich sources of carbohydrate and protein. These crops are grown over diverse production environments that are characterized by a range of environmental or abiotic stresses. Abiotic stresses such as drought, heat, salinity, or nutrient deficiencies and toxicities cause large yield losses resulting in economic and environmental damage. The negative effects of abiotic stresses have increased at an alarming rate in recent years and are predicted to further deteriorate due to climate change, land degradation, and declining water supply. New technologies have provided an important tool with great potential for improving crop tolerance to the abiotic stresses: microRNAs (miRNAs). miRNAs are small regulators of gene expression that act on many different molecular and biochemical processes such as development, environmental adaptation, and stress tolerance. miRNAs can act at both the transcriptional and post-transcriptional levels, although post-transcriptional regulation is the most common in plants where miRNAs can inhibit the translation of their mRNA targets via complementary binding and cleavage. To date, expression of several miRNA families such as miR156, miR159, and miR398 has been detected as responsive to environmental conditions to regulate stress-associated molecular mechanisms individually and/or together with their various miRNA partners. Manipulation of these miRNAs and their targets may pave the way to improve crop performance under several abiotic stresses. Here, we summarize the current status of our knowledge on abiotic stress-associated miRNAs in members of the Triticeae tribe, specifically in wheat and barley, and the miRNA-based regulatory mechanisms triggered by stress conditions. Exploration of further miRNA families together with their functions under stress will improve our knowledge and provide opportunities to enhance plant performance to help us meet global food demand.

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Section: Mirnas Associated With Abiotic Stress Responses In the Tritimentioning

confidence: 99%

Abiotic stress miRNomes in the Triticeae

Alptekin

Langridge

Budak

2016

Funct Integr Genomics

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“…miR828 is the trigger for production of TAS4 siRNAs, and was originally thought to be unique to Arabidopsis , but has subsequently been found in grape [55], poplar ( Populus trichocarpa ) [56], cotton ( Gossypium hirsutum ) [57], cabbage ( Brassica rapa ) [58], flax ( Linum usitatissimum ) [59], soybean ( Glycine max ) [21], common bean ( Phaseolus vulgaris ) [60], clary sage ( Salvia sclarea ) [61], melon ( Cucumis melo ) [62], rose ( Rosa multiflora ) [63], tomato ( Solanum lycopersicum ) [64], tobacco ( Nicotiana tabacum and N. attenuata ) [65, 66], cocoa ( Theobroma cacao ) [67], Chinese apricot ( Prunus mume ) [68, 69], peach ( Prunus persica ) [70, 71], citrus ( Citrus sinensis ) [72], apple ( Malus domestica ) [73], hickory ( Carya cathayensis ) [74], cassava ( Manihot esculenta ) [75], Brazilian cherry ( Eugenia uniflora ) [76], Chinese tulip tree ( Liriodendron chinense ) [77], and Red Sea mangrove ( Avicennia marina ) [78]. Figure 1 shows a phylogram of the evolutionary relationships for eudicot species which have evidence of TAS4 in their genomes.…”

Section: Tas4 Evolutionmentioning

confidence: 99%

Trans-acting small interfering RNA4: key to nutraceutical synthesis in grape development?

Rock

2013

Trends in Plant Science

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The facility and versatility of microRNAs (miRNAs) to evolve and change likely underlies how they have become dominant constituents of eukaryotic genomes. In this opinion article I propose that trans-acting small interfering RNA gene 4 (TAS4) evolution may be important for biosynthesis of polyphenolics, arbuscular symbiosis, and bacterial pathogen etiologies. Expression-based and phylogenetic evidence shows that TAS4 targets two novel grape (Vitis vinifera L.) MYB transcription factors (VvMYBA6, VvMYBA7) that spawn phased siRNAs and likely function in nutraceutical bioflavonoid biosynthesis and fruit development. Characterization of the molecular mechanisms of TAS4 control of plant development and integration into biotic and abiotic stress- and nutrient signaling regulatory networks has applicability to molecular breeding and development of strategies for engineering healthier foods.

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“…In addition to orchestrating proper responses to abiotic stress, miRNAs also are implicated in response to biotic factors such as defense against pathogens and herbivores (Pandey et al, 2008;Várallyay et al, 2010;Zhang et al, 2011;Bozorov et al, 2012). There is abundant evidence from expression studies (Navarro et al, 2006;Pandey et al, 2008;Bozorov et al, 2012) that links miRNA expression to disease resistance pathways.…”

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confidence: 99%

“…There is abundant evidence from expression studies (Navarro et al, 2006;Pandey et al, 2008;Bozorov et al, 2012) that links miRNA expression to disease resistance pathways. For example, MIR393 is up-regulated in response to bacterial flg22, a potent trigger of innate immunity in plants (Nürnberger and Brunner, 2002).…”

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The Mechanistic Underpinnings of anago1-Mediated, Environmentally Dependent, and Stochastic Phenotype

2016

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98195-5065 (G.A.M., T.L., C.Q.)The crucial role of microRNAs in plant development is exceedingly well supported; their importance in environmental robustness is studied in less detail. Here, we describe a novel, environmentally dependent phenotype in hypomorphic argonaute1 (ago1) mutants and uncover its mechanistic underpinnings in Arabidopsis (Arabidopsis thaliana). AGO1 is a key player in microRNA-mediated gene regulation. We observed transparent lesions on embryonic leaves of ago1 mutant seedlings. These lesions increased in frequency in full-spectrum light. Notably, the lesion phenotype was most environmentally responsive in ago1-27 mutants. This allele is thought to primarily affect translational repression, which has been linked with the response to environmental perturbation. Using several lines of evidence, we found that these lesions represent dead and dying tissues due to an aberrant hypersensitive response. Although all three canonical defense hormone pathways (salicylic acid, jasmonate, and jasmonate/ethylene pathways) were up-regulated in ago1 mutants, we demonstrate that jasmonate perception drives the lesion phenotype. Double mutants of ago1 and coronatine insensitive1, the jasmonate receptor, showed greatly decreased frequency of affected seedlings. The chaperone HEAT SHOCK PROTEIN 90 (HSP90), which maintains phenotypic robustness in the face of environmental perturbations, is known to facilitate AGO1 function. HSP90 perturbation has been shown previously to upregulate jasmonate signaling and to increase plant resistance to herbivory. Although single HSP90 mutants showed subtly elevated levels of lesions, double mutant analysis disagreed with a simple epistatic model for HSP90 and AGO1 interaction; rather, both appeared to act nonadditively in producing lesions. In summary, our study identifies AGO1 as a major, largely HSP90-independent, factor in providing environmental robustness to plants. ARGONAUTE1 (AGO1) is an ancient, highly conserved essential protein. One of 10 functionally distinct AGO proteins in the plant Arabidopsis (Arabidopsis thaliana), AGO1 uses microRNAs (miRNAs) to decrease the expression of target genes. AGO1 and the miRNA pathway are crucial for many regulatory processes throughout development and in response to environmental stimuli. As frequent components of feedforward loops, miRNAs also play important roles in controlling gene expression noise and maintaining the phenotypic robustness of specific traits in several organisms, including plants ( Lempe et al., 2013).AGO1 and miRNAs also are critical for proper plant responses to abiotic stress. The expression levels of miRNAs respond to heat shock, cold, drought, oxidative stress, UV light exposure, and hypoxia (Sunkar et al., 2012). For example, in response to drought, the expression of miR169 decreases and the expression of its target gene, encoding the transcription factor NFYA5, increases in Arabidopsis (Li et al., 2008). Increased expression of NFYA5 supports plant survival in drought conditions. Transgenic plants ove...

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Identification and profiling of miRNAs during herbivory reveals jasmonate-dependent and -independent patterns of accumulation in Nicotiana attenuata

Cited by 24 publications

References 65 publications

Abiotic stress miRNomes in the Triticeae

Abiotic stress miRNomes in the Triticeae

Trans-acting small interfering RNA4: key to nutraceutical synthesis in grape development?

The Mechanistic Underpinnings of anago1-Mediated, Environmentally Dependent, and Stochastic Phenotype

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