Comparative Transcriptome Analysis Identified Key Pathways and Genes Regulating Differentiated Stigma Color in Melon (Cucumis melo L.)
Abstract
:1. Introduction
2. Results
2.1. Pigment Content and the Structural Basis of the Stigma
2.2. Overview of Transcriptomic Data
2.3. Identification of DEGs during Stigma Development Stages
2.4. Identification of WGCNA Modules Associated with Photosynthetic Reactions
3. Discussion
3.1. Differences in Chloroplast Development of the Contrasted Melon Lines (MR-1 and M4-7)
3.2. A Complex Regulatory Network Exists for Melon Stigma Color Development
3.3. An Important Biological Process Played a Key Role in Chlorophyll Synthesis Variation and the Formation of Different Colors in Melon Stigmas
4. Materials and Methods
4.1. Plant Materials and Sampling Stages
4.2. Metabolite Detection and Transmission Electron Microscopy
4.3. RNA Sequencing and Transcriptomic Analysis
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
Abbreviations
FPKM | Fragments per kilobase of exon model per million mapped fragments |
FDR | False discovery rate |
DEGs | Differentially expressed genes |
GO | Gene ontology |
WGCNA | Co-expression network analysis |
PSI | Photosystem I |
CUTRT1 | Curvature thylakoid 1 |
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GO ID | Classification | Description |
---|---|---|
Go:0009658 | biological process | chloroplast organization |
Go:1905392 | biological process | plant organ morphogenesis |
Go:0010817 | biological process | regulation of hormone levels |
Go:0042445 | biological process | hormone metabolic process |
Go:0051640 | biological process | organelle localization |
Go:0042254 | biological process | ribosome biogenesis |
Go:0022613 | biological process | ribonucleoprotein complex biogenesis |
Go:0005618 | cellular component | cell wall |
Go:0031976 | cellular component | plastid thylakoid |
Go:0034357 | cellular component | photosynthetic membrane |
Go:0009570 | cellular component | chloroplast stroma |
Go:0003735 | molecular function | structural constituent of ribosome |
Go:0016168 | molecular function | chlorophyll binding |
Go:0016597 | molecular function | amino acid binding |
Gene_ID | Gene Annotation |
---|---|
MELO3C014477 | Cyclic nucleotide-gated ion channel 1-like isoform X3 |
MELO3C006751 | DNA-binding protein |
MELO3C012015 | WAT1-related protein |
MELO3C011657 | Tetrapyrrole-binding protein, chloroplastic |
MELO3C023604 | Glutathione transport system permease gsiD |
MELO3C014648 | Plastid lipid-associated protein |
MELO3C021788 | Photosystem I reaction center subunit III |
MELO3C006053 | Protein CURVATURE THYLAKOID 1A, chloroplastic |
MELO3C009659 | WD-repeat protein, putative |
MELO3C015140 | Cytochrome P450 |
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Lv, Y.; Amanullah, S.; Liu, S.; Zhang, C.; Liu, H.; Zhu, Z.; Zhang, X.; Gao, P.; Luan, F. Comparative Transcriptome Analysis Identified Key Pathways and Genes Regulating Differentiated Stigma Color in Melon (Cucumis melo L.). Int. J. Mol. Sci. 2022, 23, 6721. https://doi.org/10.3390/ijms23126721
Lv Y, Amanullah S, Liu S, Zhang C, Liu H, Zhu Z, Zhang X, Gao P, Luan F. Comparative Transcriptome Analysis Identified Key Pathways and Genes Regulating Differentiated Stigma Color in Melon (Cucumis melo L.). International Journal of Molecular Sciences. 2022; 23(12):6721. https://doi.org/10.3390/ijms23126721
Chicago/Turabian StyleLv, Yuanzuo, Sikandar Amanullah, Shi Liu, Chen Zhang, Hongyu Liu, Zicheng Zhu, Xian Zhang, Peng Gao, and Feishi Luan. 2022. "Comparative Transcriptome Analysis Identified Key Pathways and Genes Regulating Differentiated Stigma Color in Melon (Cucumis melo L.)" International Journal of Molecular Sciences 23, no. 12: 6721. https://doi.org/10.3390/ijms23126721