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Transcriptomic profiling of linolenic acid-responsive genes in ROS signaling from RNA-seq data in Arabidopsis.

Mata-Pérez C, Sánchez-Calvo B, Begara-Morales JC, Luque F, Jiménez-Ruiz J, Padilla MN, Fierro-Risco J, Valderrama R, Fernández-Ocaña A, Corpas FJ, Barroso JB - Front Plant Sci (2015)

Bottom Line: Thus, RNA-seq data analysis showed that an important set of these genes were associated with the jasmonic acid biosynthetic pathway including lypoxygenases (LOXs) and Allene oxide cyclases (AOCs).In this regard, we were able to identify new targets such as galactinol synthase 1 (GOLS1), methionine sulfoxide reductase (MSR) and alkenal reductase in ACSC.It is therefore possible to suggest that, in the absence of any oxidative stress, Ln is capable of modulating new sets of genes involved in the signaling mechanism mediated by additional abiotic stresses (salinity, UV and high light intensity) and especially in stresses mediated by ROS.

View Article: PubMed Central - PubMed

Affiliation: Group of Biochemistry and Cell Signaling in Nitric Oxide, Department of Experimental Biology, Area of Biochemistry and Molecular Biology, University of Jaén Jaén, Spain.

ABSTRACT
Linolenic acid (Ln) released from chloroplast membrane galactolipids is a precursor of the phytohormone jasmonic acid (JA). The involvement of this hormone in different plant biological processes, such as responses to biotic stress conditions, has been extensively studied. However, the role of Ln in the regulation of gene expression during abiotic stress situations mediated by cellular redox changes and/or by oxidative stress processes remains poorly understood. An RNA-seq approach has increased our knowledge of the interplay among Ln, oxidative stress and ROS signaling that mediates abiotic stress conditions. Transcriptome analysis with the aid of RNA-seq in the absence of oxidative stress revealed that the incubation of Arabidopsis thaliana cell suspension cultures (ACSC) with Ln resulted in the modulation of 7525 genes, of which 3034 genes had a 2-fold-change, being 533 up- and 2501 down-regulated genes, respectively. Thus, RNA-seq data analysis showed that an important set of these genes were associated with the jasmonic acid biosynthetic pathway including lypoxygenases (LOXs) and Allene oxide cyclases (AOCs). In addition, several transcription factor families involved in the response to biotic stress conditions (pathogen attacks or herbivore feeding), such as WRKY, JAZ, MYC, and LRR were also modified in response to Ln. However, this study also shows that Ln has the capacity to modulate the expression of genes involved in the response to abiotic stress conditions, particularly those mediated by ROS signaling. In this regard, we were able to identify new targets such as galactinol synthase 1 (GOLS1), methionine sulfoxide reductase (MSR) and alkenal reductase in ACSC. It is therefore possible to suggest that, in the absence of any oxidative stress, Ln is capable of modulating new sets of genes involved in the signaling mechanism mediated by additional abiotic stresses (salinity, UV and high light intensity) and especially in stresses mediated by ROS.

No MeSH data available.


Related in: MedlinePlus

Genes up- and down-regulated under several abiotic stress conditions. Inside each box are depicted the type of stress and most representative gene in that category with its fold change.
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Figure 4: Genes up- and down-regulated under several abiotic stress conditions. Inside each box are depicted the type of stress and most representative gene in that category with its fold change.

Mentions: The treatment of ACSC with 1 mM Ln provoked the over-expression of genes involved in different abiotic stress situations (Figure 4). The highest induction levels (FC = 24.725 up) were found in galactinol synthase (GOLS1, AT2G47180) which responds to heat, high light intensity, cold, salt stress and water deprivation (see Supplemental Table 5). Furthermore, different genes associated with heat responses also responded to Ln treatment such as heat stress transcription factors (AT1G52560, AT2G26150, AT4G25200, AT2G20560, AT5G56030, AT2G32120, AT1G74310, AT5G37670, AT4G21320, and AT1G16030) and to water deprivation as transcription factor DREB2A (AT5G05410) was highly induced. This gene has been shown to respond to dehydration and high salt stress (Liu et al., 1998). As is well known, Ln induces the jasmonate pathway involved in the response to biotic stress situations and wounding among other processes. An important set of over-expressed genes, accounting for 27.31% of the total, was involved in the response to wounding, with, as described previously, the most up-regulated gene being JAS1/JAZ10 among other JAZ proteins. JAZ genes are rapidly induced by JA, suggesting the presence of a negative feedback loop to replenish the JAZ protein pool and to dampen the response to JA (Chini et al., 2007; Thines et al., 2007). A high percentage of the Ln-repressed genes were involved in the response to water deprivation and salt stress, accounting for 24.36 and 21.09% of down-regulated Ln-responsive genes, respectively. The highly repressed AtERF53 (AT2G20880) is associated with drought stress responses (Cheng et al., 2012), while peptide transporter 3 (AT5G46050), involved in the response to wounding, was also repressed. Finally, another important group of down-regulated genes was activated in the response to cold and osmotic stress (16.36 and 8.73%, respectively), with the inhibition of PP2C5 (AT2G40180) acting as an MAPK phosphatase that controls MAPK levels and thus modulates innate immunity, JA and ethylene levels in Arabidopsis (Schweighofer et al., 2007).


Transcriptomic profiling of linolenic acid-responsive genes in ROS signaling from RNA-seq data in Arabidopsis.

Mata-Pérez C, Sánchez-Calvo B, Begara-Morales JC, Luque F, Jiménez-Ruiz J, Padilla MN, Fierro-Risco J, Valderrama R, Fernández-Ocaña A, Corpas FJ, Barroso JB - Front Plant Sci (2015)

Genes up- and down-regulated under several abiotic stress conditions. Inside each box are depicted the type of stress and most representative gene in that category with its fold change.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4362301&req=5

Figure 4: Genes up- and down-regulated under several abiotic stress conditions. Inside each box are depicted the type of stress and most representative gene in that category with its fold change.
Mentions: The treatment of ACSC with 1 mM Ln provoked the over-expression of genes involved in different abiotic stress situations (Figure 4). The highest induction levels (FC = 24.725 up) were found in galactinol synthase (GOLS1, AT2G47180) which responds to heat, high light intensity, cold, salt stress and water deprivation (see Supplemental Table 5). Furthermore, different genes associated with heat responses also responded to Ln treatment such as heat stress transcription factors (AT1G52560, AT2G26150, AT4G25200, AT2G20560, AT5G56030, AT2G32120, AT1G74310, AT5G37670, AT4G21320, and AT1G16030) and to water deprivation as transcription factor DREB2A (AT5G05410) was highly induced. This gene has been shown to respond to dehydration and high salt stress (Liu et al., 1998). As is well known, Ln induces the jasmonate pathway involved in the response to biotic stress situations and wounding among other processes. An important set of over-expressed genes, accounting for 27.31% of the total, was involved in the response to wounding, with, as described previously, the most up-regulated gene being JAS1/JAZ10 among other JAZ proteins. JAZ genes are rapidly induced by JA, suggesting the presence of a negative feedback loop to replenish the JAZ protein pool and to dampen the response to JA (Chini et al., 2007; Thines et al., 2007). A high percentage of the Ln-repressed genes were involved in the response to water deprivation and salt stress, accounting for 24.36 and 21.09% of down-regulated Ln-responsive genes, respectively. The highly repressed AtERF53 (AT2G20880) is associated with drought stress responses (Cheng et al., 2012), while peptide transporter 3 (AT5G46050), involved in the response to wounding, was also repressed. Finally, another important group of down-regulated genes was activated in the response to cold and osmotic stress (16.36 and 8.73%, respectively), with the inhibition of PP2C5 (AT2G40180) acting as an MAPK phosphatase that controls MAPK levels and thus modulates innate immunity, JA and ethylene levels in Arabidopsis (Schweighofer et al., 2007).

Bottom Line: Thus, RNA-seq data analysis showed that an important set of these genes were associated with the jasmonic acid biosynthetic pathway including lypoxygenases (LOXs) and Allene oxide cyclases (AOCs).In this regard, we were able to identify new targets such as galactinol synthase 1 (GOLS1), methionine sulfoxide reductase (MSR) and alkenal reductase in ACSC.It is therefore possible to suggest that, in the absence of any oxidative stress, Ln is capable of modulating new sets of genes involved in the signaling mechanism mediated by additional abiotic stresses (salinity, UV and high light intensity) and especially in stresses mediated by ROS.

View Article: PubMed Central - PubMed

Affiliation: Group of Biochemistry and Cell Signaling in Nitric Oxide, Department of Experimental Biology, Area of Biochemistry and Molecular Biology, University of Jaén Jaén, Spain.

ABSTRACT
Linolenic acid (Ln) released from chloroplast membrane galactolipids is a precursor of the phytohormone jasmonic acid (JA). The involvement of this hormone in different plant biological processes, such as responses to biotic stress conditions, has been extensively studied. However, the role of Ln in the regulation of gene expression during abiotic stress situations mediated by cellular redox changes and/or by oxidative stress processes remains poorly understood. An RNA-seq approach has increased our knowledge of the interplay among Ln, oxidative stress and ROS signaling that mediates abiotic stress conditions. Transcriptome analysis with the aid of RNA-seq in the absence of oxidative stress revealed that the incubation of Arabidopsis thaliana cell suspension cultures (ACSC) with Ln resulted in the modulation of 7525 genes, of which 3034 genes had a 2-fold-change, being 533 up- and 2501 down-regulated genes, respectively. Thus, RNA-seq data analysis showed that an important set of these genes were associated with the jasmonic acid biosynthetic pathway including lypoxygenases (LOXs) and Allene oxide cyclases (AOCs). In addition, several transcription factor families involved in the response to biotic stress conditions (pathogen attacks or herbivore feeding), such as WRKY, JAZ, MYC, and LRR were also modified in response to Ln. However, this study also shows that Ln has the capacity to modulate the expression of genes involved in the response to abiotic stress conditions, particularly those mediated by ROS signaling. In this regard, we were able to identify new targets such as galactinol synthase 1 (GOLS1), methionine sulfoxide reductase (MSR) and alkenal reductase in ACSC. It is therefore possible to suggest that, in the absence of any oxidative stress, Ln is capable of modulating new sets of genes involved in the signaling mechanism mediated by additional abiotic stresses (salinity, UV and high light intensity) and especially in stresses mediated by ROS.

No MeSH data available.


Related in: MedlinePlus