Integrated Metabolome and Transcriptome Analysis Unveils Novel Pathway Involved in the Formation of Yellow Peel in Cucumber
Abstract
:1. Introduction
2. Results
2.1. Phenotype of Two Near-Isogenic Cucumber Varieties
2.2. Differential Accumulation of Flavonoid Metabolites between L14 and L19
2.3. L14 and L19 Transcriptome Analysis
2.4. Association Analysis of Genes and Metabolites Related to Yellowing of Cucumber Peel
2.5. Validation of Transcriptomic Data Accuracy by qRT-PCR
3. Discussion
4. Materials and Methods
4.1. Plant Materials
4.2. Determination of Total Flavonoids and Carotenoids
4.3. Sample Extraction and LC–MS/MS Analysis
4.4. RNA Extraction, cDNA Library Preparation and RNA Sequencing
4.5. Analysis and Functional Annotation of Differentially Expressed Genes
4.6. qRT-PCR Verification of Gene Expression
4.7. Statistical Analysis
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
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Component Name | Compounds | OL14 vs. OL19 LogFC | YL14 vs. OL14 LogFC | Pathway ID | Index |
---|---|---|---|---|---|
Isoflavone | |||||
6-Hydroxydaidzein | −14.12976 | 14.12976 | c | pme3261 | |
Glycitein | −11.50735 | 11.50735 | c | pme3251 | |
Calycosin | −11.45121 | 11.45121 | c | pme3230 | |
Formononetin 7-O-glucoside (Ononin) | −10.78560 | 10.78560 | c | pme3502 | |
Genistein 7-O-Glucoside (Genistin) | −8.44094 | 9.46536 | c | pme3210 | |
Flavanone | |||||
Naringenin O-malonylhexoside | −17.18100 | 17.18100 | - | pma0791 | |
Naringenin | −8.77594 | 10.47588 | a, c | pme0376 | |
Naringenin chalcone | −6.71026 | 6.83489 | a | pme2957 | |
Homoeriodictyol | −6.07142 | 6.00144 | a | pme3461 | |
Hesperetin | −5.73054 | 6.56258 | a | pme2319 | |
Isosakuranetin (4’-Methylnaringenin) | −3.78556 | 8.45274 | - | pme3464 | |
Flavone C-glycosides | |||||
Apigenin C-glucoside | −16.90395 | 5.52477 | - | pma1108 | |
Isovitexin | −13.37429 | 4.78364 | d | pme0374 | |
Naringenin C-hexoside | −12.92101 | 3.95331 | - | pma0724 | |
C-hexosyl-apigenin O-caffeoylhexoside | −11.33398 | 2.92648 | - | pma6254 | |
C-hexosyl-apigenin O-p-coumaroylhexoside | −7.01972 | 4.84490 | - | pmb0680 | |
Apigenin 6-C-hexosyl-8-C-hexosyl-O-hexoside | −5.59166 | 3.92600 | - | pmb0613 | |
8-C-hexosyl-apigenin O-hexosyl-O-hexoside | −5.43549 | 3.87321 | - | pmb0639 | |
Flavonol | |||||
Kaempferide | −15.43731 | 15.43731 | d | pma1116 | |
Aromadedrin (Dihydrokaempferol) | −13.13512 | 13.13512 | a | pme2963 | |
Flavone | |||||
Acacetin O-acetyl hexoside | −12.48981 | 12.48981 | - | pmb2987 | |
sakuranetin | −11.85475 | 11.85475 | - | pme1662 | |
Butin | −8.86582 | 10.58564 | a | pme3473 | |
Apigenin 5-O-glucoside | −8.47617 | 19.03466 | - | pme0359 | |
Apigenin 7-O-glucoside (Cosmosiin) | −8.05708 | 8.32675 | d | pmb0605 | |
Apigenin | −4.35888 | 4.98833 | a, c, d | pme0379 | |
Anthocyanins | |||||
Pelargonidin 3-O-beta-D-glucoside (Callistephin chloride) | −14.15048 | 5.65299 | - | pme3392 | |
Pelargonidin | −3.76095 | 14.92857 | a, b | pme1397 | |
Catechin derivatives | |||||
Epicatechin gallate (ECG) | −10.38881 | 10.38881 | - | pme1562 | |
Epigallate catechin gallate (EGCG) | −9.86568 | 1.90675 | - | pme1486 |
GeneID | OL14_TPM | OL19_TPM | Log2FC | Description |
---|---|---|---|---|
Csa6G147460.1 | 14.38 | 2.82 | −2.35 | Phenylalanine ammonia-lyase, PAL |
Csa6G446290.1 | 29.73 | 14.41 | −1.05 | Phenylalanine ammonia-lyase, PAL |
Csa3G710200.1 | 27.32 | 3.75 | −2.86 | 4-coumarate-CoA ligase, 4CL |
Csa5G154230.1 | 149.94 | 65.11 | −1.20 | 4-coumarate-CoA ligase, 4CL |
Csa7G431440.1 | 11.08 | 1.86 | −2.57 | Shikimate O-hydroxycinnamoyltransferase, HCT |
Csa7G073660.1 | 131.04 | 18.06 | −2.86 | Caffeoyl-CoA O-methyltransferase, CCoAOMT |
Csa3G600020.1 | 78.22 | 10.12 | −2.95 | Chalcone synthase, CHS |
Csa4G112650.1 | 15.13 | 4.97 | −1.60 | Flavonol synthase, FLS |
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Chen, C.; Zhou, G.; Chen, J.; Liu, X.; Lu, X.; Chen, H.; Tian, Y. Integrated Metabolome and Transcriptome Analysis Unveils Novel Pathway Involved in the Formation of Yellow Peel in Cucumber. Int. J. Mol. Sci. 2021, 22, 1494. https://doi.org/10.3390/ijms22031494
Chen C, Zhou G, Chen J, Liu X, Lu X, Chen H, Tian Y. Integrated Metabolome and Transcriptome Analysis Unveils Novel Pathway Involved in the Formation of Yellow Peel in Cucumber. International Journal of Molecular Sciences. 2021; 22(3):1494. https://doi.org/10.3390/ijms22031494
Chicago/Turabian StyleChen, Chen, Geng Zhou, Juan Chen, Xiaohong Liu, Xiangyang Lu, Huiming Chen, and Yun Tian. 2021. "Integrated Metabolome and Transcriptome Analysis Unveils Novel Pathway Involved in the Formation of Yellow Peel in Cucumber" International Journal of Molecular Sciences 22, no. 3: 1494. https://doi.org/10.3390/ijms22031494