Cytological and Gene Profile Expression Analysis Reveals Modification in Metabolic Pathways and Catalytic Activities Induce Resistance in Botrytis cinerea Against Iprodione Isolated From Tomato
Abstract
:1. Introduction
2. Material and Methods
2.1. Collection of Samples and Chemicals
2.2. Sensitivity of B. cinerea to Iprodione
2.3. Evaluation of B. cinerea Mutants Resistant to Iprodione
2.4. Characteristics of Iprodione Mutants and Sensitive Isolates
2.5. Enzymatic Activities of Iprodione Resistant Mutant and Its Corresponding Wild Type
2.6. Transcriptome Analysis of Wild and Mutant Strain
Differential Gene Expression
2.7. Quantitative Real Time PCR Analysis
2.8. DNA Extraction, Cloning and Sequence Analysis of the Tubulin Genes
2.9. Statistical Data Analysis
3. Results
3.1. Sensitivity of B. cinerea to Iprodione
3.2. In Vitro Iprodione-Induced B. cinerea Mutants
3.3. Morphology and Physiology of Mutants
3.3.1. Iprodione Resistant Mutant’s Mycelium Growth Rate and Sclerotia Formation
3.3.2. Cell Membrane Permeability Osmotic Sensitivity Pathogenicity and Enzymatic Activity of Mutants and its Wild Type
3.3.3. Cross Resistance
3.4. Transcriptomic Data Analysis of Iprodione-Resistant Mutant and Its Wild Type after Exposed to Iprodione In Vitro
3.4.1. Functional Annotation of Transcripts and Unigenes
3.4.2. Discovery of New Genes
3.4.3. Differential Genes Expression of Iprodione Resistant Mutant and its Wild Type After Exposure to Iprodione
3.5. qRT-PCR Amplification of Some Specific Genes
3.6. Detection of Mutations in Tubulin Genes in Iprodione Mutants
4. Discussion
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Conflicts of Interest
References
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Strain | Raw Reads | Clean Reads | Clean Bases | Mapped Reads | Q 20 Avg (%) | GC Avg (%) |
---|---|---|---|---|---|---|
M0 | 47,684,718 | 47,218,908 | 7,057,947,521 | 44,704,018 (95.8%) | ||
M-ipro | 45,648,745 | 46,083,059 | 6,885,980,894 | 44,251,477 (96%) | ||
W0 | 47,109,858 | 46,628,979 | 6,970,197,563 | 44,597,601 (95.62%) | 97.76 | 47.23 |
W-ipro | 46,618,817 | 46,096,018 | 6,885,797,287 | 44,052,162 (96.22%) | ||
Total | 187,062,138 | 186,026,964 |
Strain | All DEG | DEG Upregulated | DEG Downregulated |
---|---|---|---|
M-ipro vs. W-ipro | 1897 | 886 | 1011 |
M0 vs. W0 | 1707 | 890 | 817 |
M-ipro vs. M0 | 281 | 166 | 115 |
W-ipro vs. W0 | 99 | 85 | 14 |
Gene ID | Log2 Fold Change Value | Function Annotation | |||
---|---|---|---|---|---|
M-ipro vs. W-ipro | M0 vs. W0 | M-ipro vs. M0 | W-ipro vs. W0 | ||
BCIN_02g08890 | 9.104 | 8.746 | 0.565 | 0 | Integral cellular component domain |
BCIN_13g03170 | 8.222 | 5.529 | 0.378 | −0.231 | Glycerophospholipid metabolism |
BCIN_06g07150 | 6.213 | 5.503 | 0.12 | −0.599 | Energy production and conservation |
BCIN_09g01190 | 4.878470612 | 6.006 | −0.511 | 1.2044 | Zinc finger proteins |
BCIN_13g04220 | 8.618 | −7.08119 | 8.576 | −21.308 | Chaperones proteins |
BCIN_08g06520 | 7.317 | 4.154955 | 1.07079 | −4.216 | Oxygenase super family |
Bcpg2 | 4.978 | −0.967 | 2.896255 | −2.978 | Glycosyl hydrolase family |
Bcoah | 4.878 | 6.600 | −0.511 | 1.204 | Isocitrtae lyase family |
BcatrD | 2.529 | 1.66 | 0.266 | −0.249 | ABC transporter proteins |
Bclga1 | 2.266 | 0.745 | 0.865 | −0.705 | Glutathione S transferase proteins |
BCIN_12g0243 | 2.597 | 3.064 | −0.407 | −0.046 | Catalyze aminotransferase acid |
Bcrds2 | 1.229 | 1.092 | −0.062 | −0.192 | Drug sensitivity proteins |
Bcltf1 | 0.531 | 1.292 | −1.108 | −0.3241 | Sexual development transcription factor NsdD |
BCIN_06g02680 | 2.00 | 0.835 | 1.292 | −1.108 | Phenylalanine aminomutase enzyme |
BCIN_08g02390 | 2.837039 | 2.628415 | 0.436 | 0.223 | Heat shock binding proteins |
BCIN_02g01500 | 1.929 | 0.199 | 0.318 | 1.779 | Carbohydrate transport and metabolism |
BCIN_04g01200 | 3.721 | 2.744 | 1.035 | 0.061 | Steroid biosynthesis proteins |
BCIN_08g01540 | 2.119 | 1.637 | 0.0715 | −0.411 | Steroid biosynthesis proteins |
BCIN_03g03480 | 4.555 | 4.296 | 0.285 | 0.019 | Xylanase proteins |
Bcpgx1 | 2.536 | 1.212 | 0.496 | −0.823 | Polygalacturose proteins |
BCIN_02g04800 | 4.861 | 4.796 | 0.611 | 0.536 | Amino acid metabolism proteins |
BCIN_01g01440 | 2.811 | −1.449 | 2.354 | −1.871 | Dioxygenase TDA family |
BCIN_12g04510 | 1.087 | 0.736 | 0.193 | −0.165 | Histidine kinase activity proteins |
BCIN_01g03510 | 4.531 | 3.321 | −2.06396 | 0.7321 | Cytochrome P450 |
BCIN_02g08880 | 9.495 | 8.718 | 0.024 | −0.752 | Unknown function hypothetical proteins |
BCIN_02g08890 | 9.104 | 8.745 | 0.565 | 0 | Unknown function hypothetical proteins |
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Maqsood, A.; Wu, C.; Ahmar, S.; Wu, H. Cytological and Gene Profile Expression Analysis Reveals Modification in Metabolic Pathways and Catalytic Activities Induce Resistance in Botrytis cinerea Against Iprodione Isolated From Tomato. Int. J. Mol. Sci. 2020, 21, 4865. https://doi.org/10.3390/ijms21144865
Maqsood A, Wu C, Ahmar S, Wu H. Cytological and Gene Profile Expression Analysis Reveals Modification in Metabolic Pathways and Catalytic Activities Induce Resistance in Botrytis cinerea Against Iprodione Isolated From Tomato. International Journal of Molecular Sciences. 2020; 21(14):4865. https://doi.org/10.3390/ijms21144865
Chicago/Turabian StyleMaqsood, Ambreen, Chaorong Wu, Sunny Ahmar, and Haiyan Wu. 2020. "Cytological and Gene Profile Expression Analysis Reveals Modification in Metabolic Pathways and Catalytic Activities Induce Resistance in Botrytis cinerea Against Iprodione Isolated From Tomato" International Journal of Molecular Sciences 21, no. 14: 4865. https://doi.org/10.3390/ijms21144865