Study on Differences in 2-AP Synthesis and Metabolism Among Fragrant Rice Varieties
Abstract
1. Introduction
2. Results and Analysis
2.1. Analysis of the Genetic Background of Rice
2.2. Analysis of the Metabolic Pathway for the Production of 2-AP from Putrescine and Spermine
2.3. Analysis of the 2-AP Metabolic Pathway for Proline, Glutamic Acid, and Ornithine
2.4. Analysis of Volatile Metabolites in Rice Aroma
3. Discussion
4. Materials and Methods
4.1. Material Reagents
4.2. Chip Detection
- GenTrain Score (The SNP cluster quality) > 0.6;
- Parental genotypes are pure (markers in which the majority of parental samples are heterozygous will be judged to be of poor quality, usually less than 5% heterozygosity is allowed);
- The number of genotypic deletions is less than 20% (except for Indel markers);
- High rate of correct typing.
4.3. Genomic Similarity
4.4. Gene Expression Level Detection
4.5. Sample Preparation and Content Detection of 2-AP, GABA, Proline, Glutamic Acid, and Ornithine
4.6. Enzyme Assays for PRODH, P5CS, and OAT
4.7. Volatile Metabolite Analysis
5. Conclusions
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
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Type | Accession | Badh2-Exon7(+727~+747) |
---|---|---|
Non-Fragrant | Nipponbare | GGTAAAAAGATTATGGCTTCA |
Fragrant | YZX | GGTATATA - - - - - - - - TTTCA |
Fragrant | XYXZ | GGTATATA - - - - - - - - TTTCA |
Fragrant | DT502 | GGTATATA - - - - - - - - TTTCA |
Fragrant | DLX | GGTATATA - - - - - - - - TTTCA |
Fragrant | XG6 | GGTATATA - - - - - - - - TTTCA |
Fragrant | XG12 | GGTATATA - - - - - - - - TTTCA |
Type | Accession | +551~+560 |
---|---|---|
Non-Fragrant | Nipponbare | AATGGTGTGT |
Fragrant | YZX | AATGGTGTGT |
Fragrant | XYXZ | AATGGTGTGT |
Fragrant | DT502 | AATGGTGTGT |
Fragrant | DLX | AATGGTGTGT |
Fragrant | XG6 | AATGGCGTGT |
Fragrant | XG12 | AATGGTGTGT |
OsP5CS1 (CDS) | ||||||||
---|---|---|---|---|---|---|---|---|
Type | Accession | +191~+200 | +881~+890 | +921~+930 | +946~+955 | +1651~+1660 | +1671~+1680 | +1686~+1695 |
Non-Fragrant | 9311 | TCCATATGAG | GTACTCGTGA | GCATCTACAG | GAACGAAAAA | GTTCATAAGG | GAGTCCAGGC | TATTAGTAGC |
Fragrant | YZX | TCCATATGAG | GTGCTCGTGA | GCGTCTACAG | GAACGGAAAA | GTTCATAAGG | GAATCCAGGC | TATTAGTAGC |
Fragrant | XYXZ | TCCATATGAG | GTGCTCGTGA | GCGTCTACAG | GAACGGAAAA | GTTCATAAGG | GAATCCAGGC | TATTAGTAGC |
Fragrant | DT502 | TTTCATATGAG | GTGCTCGTGA | GCGTCTACAG | GAACGGAAAA | GTTCATAAGG | GAATCCAGGC | TATTAGTAGC |
Fragrant | DLX | TCCATATGAG | GTACTCGTGA | GCATCTACAG | GAACGAAAAA | GTTCATAAGG | GAGTCCAGGC | TATTAGTAGC |
Fragrant | XG6 | TCCATATGAG | GTGCTCGTGA | GCGTCTACAG | GAACGGAAAA | GATCATAAGG | GAATCCAGGC | TATTAGTAGC |
Fragrant | XG12 | TCCATATGAG | GTACTCGTGA | GCATCTACAG | GAACGAAAAA | GTTCATAAGG | GAGTCCAGGC | TATTAGCAGC |
Material Name | Male Parent | Famale Parent | Breeding Unit |
---|---|---|---|
YZX | TLX103 | R4015 | Hunan Rice Research Institute; Hunan Jinjian Rice Industry Co. (Changde, China) |
XYXZ | XYXZ | YZX | Hunan Golden Rice Seed Industry Co. (Changsha, China) |
DT502 | DQ20 | HP | Seed Management Station of Indochina, Yunnan Province; Yunnan Type Hybrid Rice Institute, Yunnan Province |
DLX | γ-194 | DLXD | Guizhou Rice Resrarch Institute |
XG6 | Selection of a mutant strain of Xiligongmi | Guizhou Rongjiang Shengtai Agricultural Products Development Co. | |
XG12 | Selection of a mutant strain of Xiligongmi | Guizhou Rongjiang Shengtai Agricultural Products Development Co. |
Gene Name | Gene Symbol | Locus ID |
---|---|---|
Diamine oxidase | OsDAO4 | LOC_Os04g40040 |
Polyamine oxidase | OsPAO4 | LOC_Os04g57550 |
Ornithine decarboxylase | OsODC | LOC_Os02g28110 |
Ornithine aminotransferase | OsOAT | LOC_Os03g44150 |
Proline dehydrogenase | OsProDH | LOC_Os10g40360 |
Δ1-pyrroline-5-carboxylate synthetase | OsP5CS1 | LOC_Os05g38150 |
Δ1-pyrroline-5-carboxylate synthetase | OsP5CS2 | LOC_Os01g62900 |
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Wang, Q.; Long, W.; Wu, X.; Wu, C.; Gong, Y.; Wang, Z.; Zhu, S. Study on Differences in 2-AP Synthesis and Metabolism Among Fragrant Rice Varieties. Int. J. Mol. Sci. 2025, 26, 10102. https://doi.org/10.3390/ijms262010102
Wang Q, Long W, Wu X, Wu C, Gong Y, Wang Z, Zhu S. Study on Differences in 2-AP Synthesis and Metabolism Among Fragrant Rice Varieties. International Journal of Molecular Sciences. 2025; 26(20):10102. https://doi.org/10.3390/ijms262010102
Chicago/Turabian StyleWang, Qian, Wuhua Long, Xian Wu, Chaoxin Wu, Yanlong Gong, Zhongni Wang, and Susong Zhu. 2025. "Study on Differences in 2-AP Synthesis and Metabolism Among Fragrant Rice Varieties" International Journal of Molecular Sciences 26, no. 20: 10102. https://doi.org/10.3390/ijms262010102
APA StyleWang, Q., Long, W., Wu, X., Wu, C., Gong, Y., Wang, Z., & Zhu, S. (2025). Study on Differences in 2-AP Synthesis and Metabolism Among Fragrant Rice Varieties. International Journal of Molecular Sciences, 26(20), 10102. https://doi.org/10.3390/ijms262010102