Comparison between the Transcriptomes of ‘KDML105’ Rice and a Salt-Tolerant Chromosome Segment Substitution Line
Abstract
:1. Introduction
2. Materials and Methods
2.1. Plant Materials
2.2. Physiological Trait Evaluation
2.3. RNA Extraction and Illumina Sequencing
2.4. Transcriptome Data Analysis
2.5. Identification of Differentially Expressed Genes
2.6. Gene Ontology Enrichment and Pathway Analysis
2.7. Gene Expression Analysis
2.8. Determination of the Involvement of the Predicted Genes in Salt Stress Response by Using Homolog Arabidopsis Mutant Lines
3. Results
3.1. CSSL18 Has Higher Salt Tolerance than ‘KDML105’
3.2. Comparison of the Transcriptomes of CSSL18 and ‘KDML105’ Rice Seedlings
3.3. GO Enrichment Analysis of the Significant DEGs Reveals Different Mechanisms Involved in Salt Stress Responses between ‘KDML105’ and CSSL18
3.4. Differential Expression of LOC_Os04g23890 and LOC_Os07g44330 in Rice
3.5. Identification of transcription factors using MapMan analysis
3.6. Physiological Trait Analysis in Arabidopsis Mutant Lines
4. Discussion
4.1. Salt Tolerance Performance of the Four CSSLs
4.2. Transcriptome Analysis for Salt Responses Reveals Salt Tolerance Candidate Genes
4.3. Regulation Overview in MapMan Revealed Crucial Elements of the Signaling Pathway for Salt Stress Response in CSSL18
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Acknowledgments
Conflicts of Interest
References
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Locus | Bin Code | Bin Name | Description | Log2 Fold Changed | A. thaliana Ortholog | A. thaliana Mutant Stock |
---|---|---|---|---|---|---|
LOC_Os01g53920 | 30.2.11 | signaling.receptor kinases.leucine rich repeat XI | Receptor-like protein kinase 5 precursor | 1.07 | - | - |
LOC_Os01g61080 | 27.3.32 | RNA.regulation of transcription.WRKY domain transcription factor family | WRKY24 | 0.89 | At2g38470 | SALK_006603 |
LOC_Os01g65370 | 27.3.25 | RNA.regulation of transcription.MYB domain transcription factor family | MYB family transcription factor | 1.04 | - | - |
LOC_Os01g65650 | 30.2.11 | RNA.regulation of transcription.WRKY domain transcription factor family | Receptor-like protein kinase | 1.04 | At1g72180 | SALK_081193C |
LOC_Os01g72100 | 30.3 | signaling.calcium | OSCML10 | 0.66 | At1g24620 | SALK_007994 |
LOC_Os01g72370 | 27.3.6 | RNA.regulation of transcription.bHLH, Basic Helix-Loop-Helix family | HLH DNA-binding domain containing protein/OsIRO2 | 0.80 | At2g41240 | SALK_074568C |
LOC_Os01g72530 | 30.3 | signaling.calcium | OsCML31/OsMSR2 | 0.97 | At1g76640 | SALK_078400C |
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Khrueasan, N.; Chutimanukul, P.; Plaimas, K.; Buaboocha, T.; Siangliw, M.; Toojinda, T.; Comai, L.; Chadchawan, S. Comparison between the Transcriptomes of ‘KDML105’ Rice and a Salt-Tolerant Chromosome Segment Substitution Line. Genes 2019, 10, 742. https://0-doi-org.brum.beds.ac.uk/10.3390/genes10100742
Khrueasan N, Chutimanukul P, Plaimas K, Buaboocha T, Siangliw M, Toojinda T, Comai L, Chadchawan S. Comparison between the Transcriptomes of ‘KDML105’ Rice and a Salt-Tolerant Chromosome Segment Substitution Line. Genes. 2019; 10(10):742. https://0-doi-org.brum.beds.ac.uk/10.3390/genes10100742
Chicago/Turabian StyleKhrueasan, Nopphawitchayaphong, Panita Chutimanukul, Kitiporn Plaimas, Teerapong Buaboocha, Meechai Siangliw, Theerayut Toojinda, Luca Comai, and Supachitra Chadchawan. 2019. "Comparison between the Transcriptomes of ‘KDML105’ Rice and a Salt-Tolerant Chromosome Segment Substitution Line" Genes 10, no. 10: 742. https://0-doi-org.brum.beds.ac.uk/10.3390/genes10100742