Identifying Novel Genes and Proteins Involved in Salt Stress Perception and Signaling of Rice Seedlings
Rice is one of the most important crops worldwide. Crop production is constrained markedly, however, by abiotic stresses such as salinity. To elucidate early stress response signaling networks involved in rice, we report in this study an original quantitative proteomic analysis of the rice seedlings subjected to short-term salt stress. We detected 570 differentially regulated proteins (DRPs) in the root sample. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis demonstrated that DRPs of the root were mainly involved in membrane trafficking, kinase activity, and ion toxicity responses. Interactome analysis revealed the central role of root proteins involved in membrane trafficking in the early response to salinity, such as cell surface receptor-like kinases (RLKs), phosphatidylinositols (PIs), calcium-dependent protein kinases 1 and 5, calcineurin B-like protein-interacting proteins, protein phosphatase 2C (PP2C) inhibitors, and abscisic acid receptors (PYL5/10), indicating activation of S-type anion channel. Furthermore, the proteogenomic analysis revealed 128 unique genome search-specific peptides with high-quality mass spectromety (MS/MS) spectra. We identified 38 novel protein-coding genes, refined the annotation of 17 existing gene models, and suggested several novel stress-responsive proteins, such as RLK5, peroxidase 27, and growth-regulating factor 2. Novel peptides had an ortholog match in the curated protein sequence set of other plant species. In conclusion, this study identifies novel stress-responsive proteins and genes of rice, thus warrant future consideration as candidates for molecular breeding of stress-tolerant crop varieties.
| Medienart: |
E-Artikel |
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| Erscheinungsjahr: |
2022 |
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| Erschienen: |
2022 |
| Enthalten in: |
Zur Gesamtaufnahme - volume:26 |
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| Enthalten in: |
Omics : a journal of integrative biology - 26(2022), 3 vom: 01. März, Seite 151-164 |
| Sprache: |
Englisch |
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| Beteiligte Personen: |
Arefian, Mohammad [VerfasserIn] |
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| Links: |
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| Themen: |
Ecogenomics |
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| Anmerkungen: |
Date Completed 09.05.2022 Date Revised 09.05.2022 published: Print-Electronic Citation Status MEDLINE |
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| doi: |
10.1089/omi.2021.0210 |
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| funding: |
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| Förderinstitution / Projekttitel: |
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| PPN (Katalog-ID): |
NLM336077025 |
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| 245 | 1 | 0 | |a Identifying Novel Genes and Proteins Involved in Salt Stress Perception and Signaling of Rice Seedlings |
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| 500 | |a Citation Status MEDLINE | ||
| 520 | |a Rice is one of the most important crops worldwide. Crop production is constrained markedly, however, by abiotic stresses such as salinity. To elucidate early stress response signaling networks involved in rice, we report in this study an original quantitative proteomic analysis of the rice seedlings subjected to short-term salt stress. We detected 570 differentially regulated proteins (DRPs) in the root sample. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis demonstrated that DRPs of the root were mainly involved in membrane trafficking, kinase activity, and ion toxicity responses. Interactome analysis revealed the central role of root proteins involved in membrane trafficking in the early response to salinity, such as cell surface receptor-like kinases (RLKs), phosphatidylinositols (PIs), calcium-dependent protein kinases 1 and 5, calcineurin B-like protein-interacting proteins, protein phosphatase 2C (PP2C) inhibitors, and abscisic acid receptors (PYL5/10), indicating activation of S-type anion channel. Furthermore, the proteogenomic analysis revealed 128 unique genome search-specific peptides with high-quality mass spectromety (MS/MS) spectra. We identified 38 novel protein-coding genes, refined the annotation of 17 existing gene models, and suggested several novel stress-responsive proteins, such as RLK5, peroxidase 27, and growth-regulating factor 2. Novel peptides had an ortholog match in the curated protein sequence set of other plant species. In conclusion, this study identifies novel stress-responsive proteins and genes of rice, thus warrant future consideration as candidates for molecular breeding of stress-tolerant crop varieties | ||
| 650 | 4 | |a Journal Article | |
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| 650 | 4 | |a ecogenomics | |
| 650 | 4 | |a food engineering | |
| 650 | 4 | |a mass spectrometry | |
| 650 | 4 | |a membrane transporters | |
| 650 | 4 | |a plant biology | |
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| 700 | 1 | |a Antil, Neelam |e verfasserin |4 aut | |
| 700 | 1 | |a Najar, Mohd Altaf |e verfasserin |4 aut | |
| 700 | 1 | |a Behera, Santosh Kumar |e verfasserin |4 aut | |
| 700 | 1 | |a Subba, Pratigya |e verfasserin |4 aut | |
| 700 | 1 | |a Prasad, Thottethodi Subrahmanya Keshava |e verfasserin |4 aut | |
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