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Research article
Zhenchao Yang
Northwest A&F University: Northwest Agriculture and Forestry University
Corresponding Author
ORCiD: https://orcid.org/0000-0002-0017-4348
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background
Long, robust hypocotyls are important for facilitating greenhouse transplant production. Use of far-red light at the end of the day (end-of-day far-red, EOD-FR) is known to affect hypocotyl elongation. Auxin is an important regulator of plant growth and development, but its role and mechanism in EOD-FR-mediated hypocotyl elongation remain unclear. Here we combined transcriptome sequencing and metabolite profiling of pumpkin hypocotyls with related physiological experiments to provide insight into the mechanisms by which auxin affects the response to EOD-FR.
Results
After EOD-FR treatment, the length of pumpkin Hypocotyl and the IAA level of plant Hypocotyl were significantly promoted. When NPA was applied, the Hypocotyl elongation mediated by EOD-FR and the increase of IAA content were counteracted.
At the same time, through the observation of Hypocotyl sections, we found that hypocotyl cells expanded significantly after EOD-FR treatment.After EOD-FR treatment, 2801 DEGs, were identified in hypocotyl, of which 31 DEGs related to auxin synthesis, transport and signal transduction and 25 cell wall protein genes were identified.Through the detection of metabolic group, it was found that the levels of tryptophan and indole in plant increased after EOD-FR treatment.All these indicate that auxin plays an essential role in EOD-FR-mediated hypocotyl elongation.
Conclusions
We identified a large number of differentially expressed genes related to auxin synthesis, transport, and downstream response. We speculate that auxin is essential for pumpkin hypocotyl elongation mediated by EOD-FR, and that the synthesis of free IAA may be performed by the tryptophan-dependent TAA-YUC pathway. This study improves our understanding of auxin’s role in EOD-FR-mediated hypocotyl elongation.
Keywords
Cucurbita moschata, far-red light, auxin, transcriptome, metabolomics
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This is a list of supplementary files associated with this preprint. Click to download.
- AttacheTable.xls
- AttacheTable.xls
- FigS1.tif
PCA of all detected LC−MS/MS peaks in pumpkin hypocotyls from different treatments. PCA score plots were derived from the relative contents of all metabolites detected by LC−MS/MS, and there were six replicates per treatment. (a) PCA analysis diagram of metabolites identified in negative ion mode. (b) PCA analysis diagram of metabolites identified in positive ion mode.
- FigS1.tif
PCA of all detected LC−MS/MS peaks in pumpkin hypocotyls from different treatments. PCA score plots were derived from the relative contents of all metabolites detected by LC−MS/MS, and there were six replicates per treatment. (a) PCA analysis diagram of metabolites identified in negative ion mode. (b) PCA analysis diagram of metabolites identified in positive ion mode.
- FigS5.tif
(a) GO enrichment scatter plot of DEGs in hypocotyls. (b) KEGG enrichment scatter plot of DEGs in hypocotyls.
- FigS5.tif
(a) GO enrichment scatter plot of DEGs in hypocotyls. (b) KEGG enrichment scatter plot of DEGs in hypocotyls.
- Fig.S6.pdf
Comparison of the |log2(fold-change)| values of six DEGs in response to EOD-FR treatment measured by RNA-Seq or qRT–PCR.
- Fig.S6.pdf
Comparison of the |log2(fold-change)| values of six DEGs in response to EOD-FR treatment measured by RNA-Seq or qRT–PCR.
- FigureS2.tiff
Relationships among IAA, tryptophan, and indole.
- FigureS2.tiff
Relationships among IAA, tryptophan, and indole.
- FigureS3.tiff
Heatmap of all DEGs in pumpkin hypocotyl.
- FigureS3.tiff
Heatmap of all DEGs in pumpkin hypocotyl.
- FigureS4.tiff
Volcano plots of DEGs in pumpkin hypocotyl.
- FigureS4.tiff
Volcano plots of DEGs in pumpkin hypocotyl.
- FigureS7.tif
Correlations between qRT–PCR and RNA-seq data for six DEGs. Each point represents a gene expression fold-change value in pumpkin hypocotyls.
- FigureS7.tif
Correlations between qRT–PCR and RNA-seq data for six DEGs. Each point represents a gene expression fold-change value in pumpkin hypocotyls.
- ListofResponses.doc
- ListofResponses.doc
- Manuscrip11.12.doc
- Manuscrip11.12.doc
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A new preprint design is coming!
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This is a preprint, a preliminary version of a manuscript that has not completed peer review at a journal. Research Square does not conduct peer review prior to posting preprints. The posting of a preprint on this server should not be interpreted as an endorsement of its validity or suitability for dissemination as established information or for guiding clinical practice.
Research article
Zhenchao Yang
Northwest A&F University: Northwest Agriculture and Forestry University
Corresponding Author
ORCiD: https://orcid.org/0000-0002-0017-4348
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
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History
CURRENT STATUS: Posted
Version 1
Posted 02 Dec, 2020
No community comments so far
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Background
Long, robust hypocotyls are important for facilitating greenhouse transplant production. Use of far-red light at the end of the day (end-of-day far-red, EOD-FR) is known to affect hypocotyl elongation. Auxin is an important regulator of plant growth and development, but its role and mechanism in EOD-FR-mediated hypocotyl elongation remain unclear. Here we combined transcriptome sequencing and metabolite profiling of pumpkin hypocotyls with related physiological experiments to provide insight into the mechanisms by which auxin affects the response to EOD-FR.
Results
After EOD-FR treatment, the length of pumpkin Hypocotyl and the IAA level of plant Hypocotyl were significantly promoted. When NPA was applied, the Hypocotyl elongation mediated by EOD-FR and the increase of IAA content were counteracted.
At the same time, through the observation of Hypocotyl sections, we found that hypocotyl cells expanded significantly after EOD-FR treatment.After EOD-FR treatment, 2801 DEGs, were identified in hypocotyl, of which 31 DEGs related to auxin synthesis, transport and signal transduction and 25 cell wall protein genes were identified.Through the detection of metabolic group, it was found that the levels of tryptophan and indole in plant increased after EOD-FR treatment.All these indicate that auxin plays an essential role in EOD-FR-mediated hypocotyl elongation.
Conclusions
We identified a large number of differentially expressed genes related to auxin synthesis, transport, and downstream response. We speculate that auxin is essential for pumpkin hypocotyl elongation mediated by EOD-FR, and that the synthesis of free IAA may be performed by the tryptophan-dependent TAA-YUC pathway. This study improves our understanding of auxin’s role in EOD-FR-mediated hypocotyl elongation.
Figure 1
Figure 1
Figure 2
Figure 2
Figure 3
Figure 3
Figure 4
Figure 4
Figure 5
Figure 5
Figure 6
Figure 6
Figure 7
Figure 7
Figure 8
Figure 8
Figure 9
Figure 9
This is a list of supplementary files associated with this preprint. Click to download.
- AttacheTable.xls
- AttacheTable.xls
- FigS1.tif
PCA of all detected LC−MS/MS peaks in pumpkin hypocotyls from different treatments. PCA score plots were derived from the relative contents of all metabolites detected by LC−MS/MS, and there were six replicates per treatment. (a) PCA analysis diagram of metabolites identified in negative ion mode. (b) PCA analysis diagram of metabolites identified in positive ion mode.
- FigS1.tif
PCA of all detected LC−MS/MS peaks in pumpkin hypocotyls from different treatments. PCA score plots were derived from the relative contents of all metabolites detected by LC−MS/MS, and there were six replicates per treatment. (a) PCA analysis diagram of metabolites identified in negative ion mode. (b) PCA analysis diagram of metabolites identified in positive ion mode.
- FigS5.tif
(a) GO enrichment scatter plot of DEGs in hypocotyls. (b) KEGG enrichment scatter plot of DEGs in hypocotyls.
- FigS5.tif
(a) GO enrichment scatter plot of DEGs in hypocotyls. (b) KEGG enrichment scatter plot of DEGs in hypocotyls.
- Fig.S6.pdf
Comparison of the |log2(fold-change)| values of six DEGs in response to EOD-FR treatment measured by RNA-Seq or qRT–PCR.
- Fig.S6.pdf
Comparison of the |log2(fold-change)| values of six DEGs in response to EOD-FR treatment measured by RNA-Seq or qRT–PCR.
- FigureS2.tiff
Relationships among IAA, tryptophan, and indole.
- FigureS2.tiff
Relationships among IAA, tryptophan, and indole.
- FigureS3.tiff
Heatmap of all DEGs in pumpkin hypocotyl.
- FigureS3.tiff
Heatmap of all DEGs in pumpkin hypocotyl.
- FigureS4.tiff
Volcano plots of DEGs in pumpkin hypocotyl.
- FigureS4.tiff
Volcano plots of DEGs in pumpkin hypocotyl.
- FigureS7.tif
Correlations between qRT–PCR and RNA-seq data for six DEGs. Each point represents a gene expression fold-change value in pumpkin hypocotyls.
- FigureS7.tif
Correlations between qRT–PCR and RNA-seq data for six DEGs. Each point represents a gene expression fold-change value in pumpkin hypocotyls.
- ListofResponses.doc
- ListofResponses.doc
- Manuscrip11.12.doc
- Manuscrip11.12.doc
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