Transcriptional Analysis on Resistant and Susceptible Kiwifruit Genotypes Activating Different Plant-Immunity Processes against Pseudomonas syringae pv. actinidiae
Abstract
:1. Introduction
2. Results
2.1. Symptoms of MH and HY Shoots Infected with Psa
2.2. RNA-Seq Data Analysis and DEGs in Response to Psa Infection
2.3. Functional Classification of DEGs after Psa Inoculation
2.4. Pathway-Enrichment Analysis of DEGs after Psa Inoculation
2.5. Analysis of Genes Related to Plant Innate Immune System
2.6. Regulation of Ca2+ Internal Flow and Reactive-Oxygen Species
2.7. Analysis of DEGs Involved in Secondary Metabolism
2.8. Verification of Gene Expression by q-PCR
3. Discussion
4. Materials and Methods
4.1. Plant Materials and Psa Inoculation
4.2. Total RNA Extraction, cDNA Library Construction, and Sequencing
4.3. Sequencing Read Mapping and Identification of DEGs
4.4. Gene Ontology and KEGG Pathway Analysis
4.5. Quantitative Real-Time PCR Analysis
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Conflicts of Interest
References
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Samples | Raw Reads | Clean Reads | Mapped Reads | Uniquely Mapped | Uniquely Mapped Rate |
---|---|---|---|---|---|
HY_C_1 | 53173060 | 47659800 | 42445216 | 41754675 | 87.61% |
HY_C_2 | 50688944 | 44697010 | 39824177 | 38533070 | 86.21% |
HY_C_3 | 50321846 | 45046286 | 39975928 | 39282108 | 87.20% |
HY_P_1 | 52583390 | 47199212 | 40516165 | 39783757 | 84.29% |
HY_P_2 | 47920524 | 42513064 | 36786553 | 35602846 | 83.75% |
HY_P_3 | 52116128 | 46209178 | 41318821 | 40630090 | 87.93% |
MH_C_1 | 47134410 | 41928396 | 16033373 | 14770334 | 35.23% |
MH_C_2 | 51174634 | 45465026 | 17584600 | 16821959 | 37.00% |
MH_C_3 | 53840934 | 47798112 | 18719524 | 17294295 | 36.18% |
MH_P_1 | 51884426 | 45765796 | 17705514 | 17016783 | 37.18% |
MH_P_2 | 50151192 | 44200726 | 17146800 | 15883761 | 35.94% |
MH_P_3 | 53392744 | 47376418 | 18078332 | 16653103 | 35.15% |
Description | DEGs of HY | Description | DEGs of MH | ||||
---|---|---|---|---|---|---|---|
Up | Down | All | Up | Down | All | ||
Metabolic pathways | 153 | 232 | 385 | Metabolic pathways | 116 | 178 | 294 |
Biosynthesis of secondary metabolites | 78 | 141 | 219 | Biosynthesis of secondary metabolites | 11 | 96 | 107 |
Plant hormone signal transduction | 36 | 46 | 82 | Starch and sucrose metabolism | 30 | 39 | 69 |
Microbial metabolism in diverse environments | 41 | 38 | 79 | Antigen processing and presentation | 58 | 7 | 65 |
Plant–pathogen interaction | 40 | 20 | 60 | Microbial metabolism in diverse environments | 5 | 33 | 38 |
Biosynthesis of amino acids | 15 | 34 | 49 | Plant hormone-signal transduction | 9 | 27 | 36 |
Starch and sucrose metabolism | 13 | 33 | 46 | Amino sugar and nucleotide sugar metabolism | 9 | 24 | 33 |
Protein processing in endoplasmic reticulum | 32 | 10 | 42 | Biosynthesis of unsaturated fatty acids | 26 | 6 | 32 |
Amino sugar and nucleotide sugar metabolism | 6 | 31 | 37 | Phagosome | 7 | 19 | 26 |
Glycolysis/Gluconeogenesis | 14 | 19 | 33 | Biosynthesis of amino acids | 1 | 24 | 25 |
Cell cycle | 5 | 26 | 31 | Galactose metabolism | 16 | 8 | 24 |
Peroxisome | 20 | 10 | 30 | Purine metabolism | 4 | 20 | 24 |
Pentose and glucuronate interconversions | 6 | 24 | 30 | Pentose and glucuronate interconversions | 8 | 15 | 23 |
Purine metabolism | 6 | 23 | 29 | Glycolysis/gluconeogenesis | 5 | 18 | 23 |
Cysteine and methionine metabolism | 7 | 21 | 28 | Protein processing in endoplasmic reticulum | 2 | 20 | 22 |
Pyrimidine metabolism | 9 | 18 | 27 | Photosynthesis | 7 | 11 | 18 |
Phenylalanine metabolism | 9 | 15 | 24 | Gap junction | 11 | 6 | 17 |
Glutathione metabolism | 18 | 5 | 23 | Estrogen-signaling pathway | 15 | 1 | 16 |
Epstein-Barr virus infection | 12 | 10 | 22 | Cell cycle | 2 | 14 | 16 |
Phenylpropanoid biosynthesis | 6 | 15 | 21 | Plant–pathogen interaction | 1 | 15 | 16 |
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Qin, X.; Zhang, M.; Li, Q.; Chen, D.; Sun, L.; Qi, X.; Cao, K.; Fang, J. Transcriptional Analysis on Resistant and Susceptible Kiwifruit Genotypes Activating Different Plant-Immunity Processes against Pseudomonas syringae pv. actinidiae. Int. J. Mol. Sci. 2022, 23, 7643. https://doi.org/10.3390/ijms23147643
Qin X, Zhang M, Li Q, Chen D, Sun L, Qi X, Cao K, Fang J. Transcriptional Analysis on Resistant and Susceptible Kiwifruit Genotypes Activating Different Plant-Immunity Processes against Pseudomonas syringae pv. actinidiae. International Journal of Molecular Sciences. 2022; 23(14):7643. https://doi.org/10.3390/ijms23147643
Chicago/Turabian StyleQin, Xiaobo, Min Zhang, Qiaohong Li, Dalei Chen, Leiming Sun, Xiujuan Qi, Ke Cao, and Jinbao Fang. 2022. "Transcriptional Analysis on Resistant and Susceptible Kiwifruit Genotypes Activating Different Plant-Immunity Processes against Pseudomonas syringae pv. actinidiae" International Journal of Molecular Sciences 23, no. 14: 7643. https://doi.org/10.3390/ijms23147643