Plant Soft Rot Development and Regulation from the Viewpoint of Transcriptomic Profiling
Abstract
:1. Introduction
2. Results and Discussion
2.1. Categories of DEGs
2.1.1. Cell Wall
2.1.2. Phytohormones
2.1.3. Primary Metabolism
2.1.4. Secondary Metabolism
2.1.5. Stress-Related Genes
2.1.6. Signaling
2.2. Transcription Factors
3. Materials and Methods
3.1. Bacteria and Plant Growth Conditions, Plant Inoculation, and Sample Collection
3.2. RNA Extraction and cDNA Library Preparation
3.3. Identification and Classification of DEGs
3.4. Prediction of the Transcription Factors Involved in Regulation of Pba-Induced Plant Responses
3.5. Verification of RNA-Seq by qRT-PCR
3.6. Lipoxygenase and Divinyl Ether Synthase Activity Assay
4. Conclusions
Supplementary Materials
Author Contributions
Funding
Conflicts of Interest
References
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Transcription Factor | Amount of Predicted Target Genes | FDR | GeneID (RefSeq) | Expression Pattern, log2FC | ||||
---|---|---|---|---|---|---|---|---|
Up Regulated DEGs | Down Regulated DEGs | Total DEGs | Total Non-DEGs | |||||
TCP3 | 62 | 101 | 163 | 281 | 0.0405 | LOC107768765 | nonEXP | |
TCP15 | 93 | 110 | 203 | 361 | 0.0405 | LOC107795877 | −4.424 | |
LOC107800433 | −2.127 | |||||||
WRKY6 | 362 | 281 | 643 | 1335 | 0.0405 | LOC107807966 | 5.332 | |
LOC107782559 | 5.427 | |||||||
LOC107824974 | 2.742 | |||||||
WRKY42 | 408 | 323 | 731 | 1505 | 0.0289 | LOC107770788 | 1.352 | |
LOC107824355 | 2.441 | |||||||
WRKY45 | 463 | 370 | 833 | 1727 | 0.0289 | LOC107763775 | 5.993 | |
LOC107769441 | 7.22 | |||||||
WRKY51 | 78 | 51 | 129 | 208 | 0.0405 | LOC107787246 | 2.64 | |
WRKY57 | 42 | 31 | 73 | 103 | 0.0405 | LOC107815490 | nonDEG | |
LOC107788682 | nonDEG |
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Tsers, I.; Gorshkov, V.; Gogoleva, N.; Parfirova, O.; Petrova, O.; Gogolev, Y. Plant Soft Rot Development and Regulation from the Viewpoint of Transcriptomic Profiling. Plants 2020, 9, 1176. https://doi.org/10.3390/plants9091176
Tsers I, Gorshkov V, Gogoleva N, Parfirova O, Petrova O, Gogolev Y. Plant Soft Rot Development and Regulation from the Viewpoint of Transcriptomic Profiling. Plants. 2020; 9(9):1176. https://doi.org/10.3390/plants9091176
Chicago/Turabian StyleTsers, Ivan, Vladimir Gorshkov, Natalia Gogoleva, Olga Parfirova, Olga Petrova, and Yuri Gogolev. 2020. "Plant Soft Rot Development and Regulation from the Viewpoint of Transcriptomic Profiling" Plants 9, no. 9: 1176. https://doi.org/10.3390/plants9091176